| Back to Long Tests report for BioC 3.21 |
This page was generated on 2025-08-30 23:55 -0400 (Sat, 30 Aug 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4824 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4606 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 6/30 | Hostname | OS / Arch | CHECK | |||||||
| biodbChebi 1.14.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | |||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | ||||||||
|
To the developers/maintainers of the biodbChebi package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbChebi |
| Version: 1.14.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.14.0.tar.gz |
| StartedAt: 2025-08-30 16:01:16 -0400 (Sat, 30 Aug 2025) |
| EndedAt: 2025-08-30 16:05:52 -0400 (Sat, 30 Aug 2025) |
| EllapsedTime: 275.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
biodbChebi.Rcheck/tests/testthat.Rout
R version 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
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Type 'q()' to quit R.
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-08-30 16:02:01.581][biodb::testContext]
biodb.INFO [2025-08-30 16:02:01.584][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-30 16:02:01.586][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-08-30 16:02:01.587][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-30 16:02:01.588][biodb::testContext]
biodb.INFO [2025-08-30 16:02:01.594][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-30 16:02:01.596][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-30 16:02:01.604][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-30 16:02:01.605][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-30 16:02:01.607][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-30 16:02:01.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.611][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-30 16:02:01.635][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-30 16:02:01.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.640][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-30 16:02:01.641][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-30 16:02:01.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.646][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-30 16:02:01.647][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-30 16:02:01.648][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-30 16:02:01.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.653][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-30 16:02:01.654][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-30 16:02:01.655][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-30 16:02:01.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.660][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-30 16:02:01.661][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-30 16:02:01.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.666][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-30 16:02:01.667][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-30 16:02:01.668][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-30 16:02:01.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.673][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-30 16:02:01.674][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-30 16:02:01.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.678][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-30 16:02:01.680][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-30 16:02:01.681][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-30 16:02:01.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.685][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-30 16:02:01.687][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-30 16:02:01.688][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-30 16:02:01.689][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-30 16:02:01.690][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-30 16:02:01.692][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-30 16:02:01.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.696][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-30 16:02:01.698][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-30 16:02:01.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.702][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-30 16:02:01.703][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-30 16:02:01.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.708][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-30 16:02:01.709][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-30 16:02:01.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.714][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-30 16:02:01.715][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-30 16:02:01.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.719][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-30 16:02:01.721][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-30 16:02:01.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.725][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-30 16:02:01.726][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-30 16:02:01.738][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-30 16:02:01.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.743][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-30 16:02:01.744][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-30 16:02:01.745][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-30 16:02:01.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.752][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-30 16:02:01.797][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.825][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-30 16:02:01.827][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.828][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:02:01.829][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.830][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.832][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.833][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.834][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-30 16:02:01.836][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:02:01.837][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.838][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-30 16:02:01.840][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:02:01.841][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.842][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.843][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-30 16:02:01.843][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-30 16:02:01.843][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-30 16:02:01.843][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-30 16:02:01.843][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-30 16:02:01.845][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-30 16:02:01.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:01.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:01.849][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:02:01.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:01.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:01.852][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.854][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.855][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:02:01.856][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:02:01.857][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.859][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.860][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-30 16:02:01.863][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.864][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-30 16:02:01.866][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.867][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:02:01.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.870][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.871][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.873][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.874][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-30 16:02:01.875][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:02:01.876][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.878][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-30 16:02:01.879][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:02:01.880][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.881][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.883][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-30 16:02:01.883][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-30 16:02:01.883][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-30 16:02:01.883][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-30 16:02:01.883][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-30 16:02:01.884][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-30 16:02:01.885][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:01.886][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:01.888][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:02:01.889][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:01.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:01.891][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.892][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.894][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:02:01.895][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:02:01.896][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.897][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.899][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-30 16:02:01.901][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.902][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-30 16:02:01.903][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.905][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:02:01.906][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.907][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.909][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.910][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.911][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-30 16:02:01.912][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:02:01.914][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.915][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-30 16:02:01.916][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:02:01.917][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.919][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.920][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.921][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-30 16:02:01.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:01.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:01.925][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:02:01.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:01.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:01.928][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.930][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.931][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:02:01.932][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:02:01.933][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.935][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.936][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-30 16:02:01.938][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.940][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-30 16:02:01.941][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.942][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:02:01.943][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.945][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.946][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.947][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.949][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-30 16:02:01.950][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:02:01.951][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.952][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-30 16:02:01.954][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:02:01.955][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.956][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:01.957][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.959][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-30 16:02:01.960][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:01.961][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:01.962][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:02:01.964][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:01.965][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:01.966][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:02:01.967][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.968][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:02:01.970][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:02:01.971][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:01.972][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-30 16:02:01.976][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-30 16:02:01.977][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:01.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:01.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:01.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:01.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:01.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:01.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:01.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:01.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:01.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:01.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.079][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-30 16:02:02.084][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-30 16:02:02.086][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-30 16:02:02.088][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-30 16:02:02.089][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-30 16:02:02.091][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-30 16:02:02.093][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-30 16:02:02.094][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-30 16:02:02.096][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-30 16:02:02.098][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-30 16:02:02.099][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-30 16:02:02.101][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-30 16:02:02.103][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-30 16:02:02.104][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-30 16:02:02.106][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-30 16:02:02.108][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-30 16:02:02.109][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-30 16:02:02.111][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-30 16:02:02.113][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-30 16:02:02.115][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-30 16:02:02.116][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-30 16:02:02.118][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-30 16:02:02.120][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-30 16:02:02.121][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-30 16:02:02.123][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-30 16:02:02.125][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-30 16:02:02.126][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-30 16:02:02.128][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-30 16:02:02.130][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-30 16:02:02.132][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-30 16:02:02.133][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-30 16:02:02.135][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-30 16:02:02.137][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-30 16:02:02.138][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-30 16:02:02.140][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-30 16:02:02.142][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-30 16:02:02.143][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-30 16:02:02.145][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-30 16:02:02.147][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-30 16:02:02.148][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-30 16:02:02.150][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-30 16:02:02.152][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-30 16:02:02.154][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-30 16:02:02.155][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-30 16:02:02.157][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-30 16:02:02.159][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-30 16:02:02.161][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-30 16:02:02.162][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-30 16:02:02.164][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-30 16:02:02.166][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-30 16:02:02.167][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-30 16:02:02.169][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-30 16:02:02.171][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-30 16:02:02.172][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-30 16:02:02.174][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-30 16:02:02.176][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-30 16:02:02.178][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-30 16:02:02.179][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-30 16:02:02.181][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-30 16:02:02.183][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-30 16:02:02.185][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-30 16:02:02.186][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-30 16:02:02.188][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-30 16:02:02.190][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-30 16:02:02.191][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-30 16:02:02.193][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-30 16:02:02.195][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-30 16:02:02.196][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-30 16:02:02.198][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-30 16:02:02.200][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-30 16:02:02.201][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-30 16:02:02.203][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-30 16:02:02.205][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-30 16:02:02.206][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-30 16:02:02.208][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-30 16:02:02.210][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-30 16:02:02.212][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-30 16:02:02.214][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-30 16:02:02.215][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-30 16:02:02.217][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-30 16:02:02.219][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-30 16:02:02.220][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-30 16:02:02.222][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-30 16:02:02.230][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-30 16:02:02.232][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-30 16:02:02.236][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-30 16:02:02.237][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.239][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-30 16:02:02.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:02.383][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-30 16:02:02.395][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-30 16:02:02.398][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:02.399][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-30 16:02:02.400][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:02.401][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-30 16:02:02.403][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:02.404][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-30 16:02:02.405][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:02.406][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-30 16:02:02.407][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-30 16:02:02.409][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-30 16:02:02.410][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:02.411][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-30 16:02:02.412][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-30 16:02:02.414][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-30 16:02:02.415][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-30 16:02:02.416][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-30 16:02:02.416][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-30 16:02:02.416][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-30 16:02:02.418][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-30 16:02:02.419][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:02.420][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:02.421][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-30 16:02:02.422][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-30 16:02:02.423][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-30 16:02:02.424][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-30 16:02:02.426][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:02.426][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-30 16:02:02.427][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-30 16:02:02.428][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-30 16:02:02.429][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-30 16:02:02.430][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-30 16:02:02.430][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-30 16:02:02.438][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-30 16:02:02.440][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-30 16:02:02.442][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-30 16:02:02.444][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-30 16:02:02.446][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-30 16:02:02.447][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-30 16:02:02.497][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-30 16:02:02.498][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-30 16:02:02.502][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-30 16:02:02.507][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-30 16:02:02.511][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-30 16:02:02.512][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-30 16:02:02.514][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-30 16:02:02.515][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-30 16:02:02.526][biodb::testThat]
biodb.INFO [2025-08-30 16:02:02.527][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-08-30 16:02:02.528][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:02.529][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:02.533][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-08-30 16:02:02.535][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:02.539][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:02.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:02.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:02.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:02.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:02.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:02.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:02.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:02.577][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.579][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.605][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:02.606][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:02.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.608][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:02.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:02.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.650][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:02.652][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:02.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.656][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:02.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:02.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.661][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:02.662][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:02.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:02.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:02.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.671][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.672][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.681][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:02.683][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:02.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.687][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:02.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:02.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.692][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:02.693][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.696][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.697][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:02.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.702][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:02.704][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:02.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:02.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:02.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.721][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:02.722][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:02.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.726][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:02.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:02.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.731][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:02.732][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:02.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.736][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:02.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:02.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.741][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:02.743][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:02.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.745][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.746][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:02.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:02.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:02.846][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-08-30 16:02:02.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:02.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:02.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.854][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:02.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:02.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:02.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:02.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.915][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:02.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:02.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.920][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:02.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:02.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.925][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:02.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:02.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.930][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:02.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:02.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:02.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:02.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:02.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:02.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:02.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.055][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.095][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.096][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.114][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.129][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.131][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.135][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.150][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.160][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.165][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.167][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.170][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.201][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.202][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.236][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.237][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.256][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.266][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.271][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.276][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.281][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.296][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.301][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.306][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.311][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.312][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.316][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.330][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.336][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.341][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.347][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.351][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.365][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.375][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.382][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.385][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.415][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.416][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.444][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.454][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.472][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.474][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.482][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.484][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.492][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.494][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.502][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.504][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.513][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.514][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.523][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.524][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.533][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.534][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.543][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.553][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.555][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.564][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.565][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.574][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.575][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.601][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2025-08-30 16:02:03.655][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:03.656][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:03.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:03.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:03.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:03.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:03.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:03.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:03.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:03.673][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.677][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.706][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.708][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.712][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:03.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:03.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.717][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.718][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.723][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:03.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:03.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.728][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.730][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.739][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.740][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.744][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.749][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.751][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.753][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.755][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:03.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.760][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:03.761][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.765][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:03.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.770][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.772][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:03.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.781][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.782][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:03.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:03.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:03.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:03.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:03.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.802][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.803][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.807][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:03.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:03.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:03.867][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2025-08-30 16:02:03.896][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.901][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:03.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:03.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.906][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.911][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:03.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:03.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.927][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:03.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:03.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.932][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:03.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:03.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.937][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:03.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:03.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.942][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:03.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:03.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:03.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:03.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:03.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:03.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:03.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.063][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.064][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.067][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.128][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.133][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.135][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.137][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.153][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.159][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.164][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.169][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.170][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.174][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.194][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:04.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.209][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:04.211][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.213][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.214][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:04.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.245][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.246][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.280][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.281][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.299][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.304][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.309][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.314][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.317][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.319][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.334][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.339][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.349][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.351][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.353][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.355][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.375][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.380][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.385][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.390][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.391][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.395][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.409][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.419][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.424][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.426][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.429][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.444][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.459][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.461][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.464][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.494][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.496][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.514][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.516][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.525][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.526][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.535][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.536][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.545][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.547][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.556][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.562][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.571][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.573][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.582][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.583][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.592][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.594][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.603][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.604][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.613][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.614][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.617][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.623][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.625][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.627][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.634][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2025-08-30 16:02:04.636][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:04.637][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:04.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:04.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:04.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:04.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:04.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:04.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:04.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:04.655][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.656][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.666][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.667][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.672][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:04.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:04.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.677][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.679][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.682][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.683][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:04.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:04.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.689][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.690][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.700][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.702][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.711][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.712][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.716][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:04.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.721][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:04.723][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.727][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:04.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.732][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.733][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:04.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.743][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.744][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:04.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:04.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.754][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:04.755][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.764][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:04.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:04.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.769][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.770][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.774][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:04.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:04.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:04.831][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2025-08-30 16:02:04.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.839][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:04.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:04.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:04.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:04.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.865][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:04.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:04.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.870][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:04.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:04.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.875][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:04.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:04.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.880][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:04.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:04.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:04.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.986][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.988][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:04.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:04.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:04.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:04.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.007][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:05.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:05.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:05.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:05.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.017][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:05.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:05.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.022][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:05.023][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:05.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.026][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:05.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:05.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:05.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:05.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:05.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:05.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:05.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:05.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.057][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:05.059][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:05.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.061][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:05.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:05.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.092][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.093][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.111][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.116][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.121][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.127][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.132][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.165][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.166][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.199][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.200][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.218][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:05.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:05.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.223][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:05.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:05.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.228][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:05.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:05.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.233][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:05.234][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:05.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.238][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:05.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:05.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.252][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.257][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.262][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.267][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.268][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.272][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.287][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:05.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:05.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:05.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:05.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:05.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:05.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.302][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:05.303][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:05.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.305][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:05.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:05.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:05.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:05.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.330][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:05.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:05.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.335][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:05.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:05.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.340][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:05.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:05.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.344][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:05.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:05.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.360][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:05.362][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:05.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.364][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.370][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:05.372][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:05.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.380][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:05.382][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:05.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.390][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:05.391][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:05.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.400][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.401][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:05.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.410][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.411][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:05.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.420][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.421][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:05.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.423][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.430][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.431][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:05.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.439][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.441][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:05.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.449][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:05.451][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:05.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:05.459][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:05.461][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:05.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:05.463][ef$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:05.473][biodb::testThat]
biodb.INFO [2025-08-30 16:02:05.475][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-30 16:02:05.476][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:05.477][biodb::testThat]
biodb.DEBUG[2025-08-30 16:02:05.479][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2025-08-30 16:02:05.487][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-08-30 16:02:05.493][cch$loadFileContent] Trying to load 3 files from cache: [3]: "15440, 2528, 7799".
biodb.TRACE[2025-08-30 16:02:05.495][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2025-08-30 16:02:05.496][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:05.497][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:05.499][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:05.500][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:05.501][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:05.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:05.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:05.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:05.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:05.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:05.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:05.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:05.527][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
biodb.DEBUG[2025-08-30 16:02:05.554][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:05.555][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:05.557][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
biodb.TRACE[2025-08-30 16:02:12.250][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
biodb.DEBUG[2025-08-30 16:02:12.710][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:12.712][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5c6fb88c946e8568cc03c0d73dc5603e.content"
biodb.TRACE[2025-08-30 16:02:12.732][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5c6fb88c946e8568cc03c0d73dc5603e.request"
biodb.DEBUG[2025-08-30 16:02:12.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:12.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:12.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:12.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:12.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:12.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:12.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:12.775][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2025-08-30 16:02:12.797][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:12.798][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:12.827][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2025-08-30 16:02:13.205][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2025-08-30 16:02:13.580][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:13.582][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2025-08-30 16:02:13.587][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2025-08-30 16:02:13.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:13.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:13.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:13.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:13.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:13.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:13.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:13.602][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2025-08-30 16:02:13.605][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:13.607][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:13.608][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2025-08-30 16:02:13.990][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2025-08-30 16:02:14.366][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:14.369][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2025-08-30 16:02:14.440][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2025-08-30 16:02:14.443][private$doSaveContentToFile] Saving to cache [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2025-08-30 16:02:14.446][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:14.448][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-08-30 16:02:14.450][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:14.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.467][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.469][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.471][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.478][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:14.479][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:14.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.483][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:14.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:14.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.488][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:14.490][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:14.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:14.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:14.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:14.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:14.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:14.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:14.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.509][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.510][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.519][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.521][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.525][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.541][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:14.542][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.546][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:14.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.551][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.552][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.561][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:14.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:14.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:14.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:14.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.572][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:14.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:14.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.577][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:14.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.582][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:14.584][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:14.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.588][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:14.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:14.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.643][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.645][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.654][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:14.655][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:14.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.659][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:14.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:14.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.664][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:14.666][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:14.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.668][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.670][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:14.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:14.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.679][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:14.681][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:14.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:14.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:14.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.690][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.691][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.700][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.701][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.705][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.710][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:14.712][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.715][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:14.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.721][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.722][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.731][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:14.732][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:14.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.736][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:14.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:14.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.741][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:14.743][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:14.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.745][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.746][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:14.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:14.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.752][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:14.753][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:14.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.755][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.757][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:14.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:14.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:14.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:14.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:14.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:14.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:14.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:14.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:14.836][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.838][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.846][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:14.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:14.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.850][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:14.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:14.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.857][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:14.858][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:14.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:14.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:14.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.867][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:14.869][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:14.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:14.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:14.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.878][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.879][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.883][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:14.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.888][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.889][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.892][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.893][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:14.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.898][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:14.900][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.904][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:14.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:14.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.909][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.910][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:14.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.919][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:14.920][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:14.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.923][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:14.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:14.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.929][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:14.931][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:14.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.935][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:14.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:14.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.940][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:14.941][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:14.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.943][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.945][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:14.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:14.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:14.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:14.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:14.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:14.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:14.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:15.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:15.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:15.035][self$createEntryFromContent] Accession numbers: 15440, 2528, 7799.
biodb.TRACE[2025-08-30 16:02:15.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-30 16:02:15.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-30 16:02:15.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:02:15.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:02:15.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:02:15.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:02:15.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-30 16:02:15.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-30 16:02:15.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:02:15.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:02:15.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:02:15.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:02:15.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-30 16:02:15.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-30 16:02:15.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:02:15.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-30 16:02:15.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:02:15.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-30 16:02:15.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:15.102][biodb::testThat]
biodb.INFO [2025-08-30 16:02:15.103][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-30 16:02:15.104][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:15.106][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:15.109][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:15.111][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:15.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.113][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:15.118][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-08-30 16:02:15.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:15.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:15.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:15.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:15.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:15.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:15.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:15.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:15.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:15.171][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-08-30 16:02:15.174][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-30 16:02:15.177][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:15.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-30 16:02:15.200][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:15.202][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-30 16:02:15.206][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:15.211][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:15.212][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:15.214][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:15.692][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:16.137][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:16.140][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-08-30 16:02:16.145][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-08-30 16:02:16.149][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-08-30 16:02:16.164][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.166][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:16.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.169][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.170][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.173][ef$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:16.186][biodb::testThat]
biodb.INFO [2025-08-30 16:02:16.187][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-08-30 16:02:16.188][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:16.190][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:16.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:16.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:16.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.227][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:16.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:16.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:16.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:16.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:16.315][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:16.319][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:16.321][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:16.323][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:16.325][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-08-30 16:02:16.347][biodb::testThat]
biodb.INFO [2025-08-30 16:02:16.348][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-08-30 16:02:16.349][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:16.350][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:16.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:16.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:16.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:16.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:16.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.394][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:16.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:16.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.399][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:16.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:16.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.404][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:16.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:16.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.409][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:16.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:16.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:16.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:16.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:16.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:16.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:16.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:16.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.461][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:16.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:16.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.466][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-30 16:02:16.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-30 16:02:16.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.471][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:16.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-30 16:02:16.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:16.476][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:16.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-30 16:02:16.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:16.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:16.488][biodb::testThat]
biodb.INFO [2025-08-30 16:02:16.489][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-30 16:02:16.490][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:16.492][biodb::testThat]
biodb.INFO [2025-08-30 16:02:16.503][biodb::testThat]
biodb.INFO [2025-08-30 16:02:16.504][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-30 16:02:16.505][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:16.506][biodb::testThat]
biodb.INFO [2025-08-30 16:02:16.519][biodb::testThat]
biodb.INFO [2025-08-30 16:02:16.520][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-30 16:02:16.521][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:16.522][biodb::testThat]
biodb.DEBUG[2025-08-30 16:02:16.527][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-08-30 16:02:17.220][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-08-30 16:02:17.929][biodb::testThat]
biodb.INFO [2025-08-30 16:02:17.930][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-30 16:02:17.932][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:17.933][biodb::testThat]
biodb.DEBUG[2025-08-30 16:02:18.323][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-08-30 16:02:18.713][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:18.715][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:18.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.718][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:18.720][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:18.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.722][ef$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:18.724][biodb::testThat]
biodb.INFO [2025-08-30 16:02:18.725][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-08-30 16:02:18.726][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:18.727][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:18.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:18.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:18.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:18.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:18.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:18.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:18.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:18.854][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:18.859][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:18.860][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:18.862][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:18.864][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:02:18.946][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:18.950][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:18.952][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:18.953][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:18.955][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-08-30 16:02:18.972][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:18.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:18.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:18.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:18.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:18.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:19.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:19.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:19.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:19.019][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:19.024][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:19.025][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:19.027][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:19.402][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:19.774][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:19.777][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-08-30 16:02:19.781][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-08-30 16:02:19.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:19.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:19.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:19.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:19.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:19.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:19.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:19.798][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-08-30 16:02:19.867][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:19.869][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-08-30 16:02:19.870][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:19.872][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:19.873][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:19.874][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:19.875][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:19.877][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:19.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:19.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:19.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:19.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:19.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:19.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:19.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:19.908][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-08-30 16:02:19.911][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:19.913][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:19.914][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-08-30 16:02:20.287][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-08-30 16:02:20.660][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:20.662][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-08-30 16:02:20.708][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-08-30 16:02:20.751][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-08-30 16:02:20.753][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:20.755][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:20.756][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:20.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:20.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:20.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:20.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:20.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:20.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:20.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:20.772][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.774][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.783][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:20.784][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:20.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.788][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:20.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:20.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.793][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:20.794][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:20.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.805][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:20.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:20.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.810][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:20.812][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:20.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:20.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:20.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.820][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:20.822][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:20.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.824][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:20.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:20.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.830][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:20.832][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:20.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.835][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:20.837][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.841][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:20.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.846][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:20.847][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:20.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:20.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:20.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.856][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:20.857][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:20.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.861][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:20.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:20.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.866][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:20.867][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:20.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.871][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:20.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:20.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.876][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:20.878][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:20.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:20.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:20.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:20.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:20.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:20.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:20.940][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-08-30 16:02:20.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:20.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:20.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:20.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:20.969][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:20.973][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:20.974][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:20.976][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:21.351][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:21.724][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:21.727][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-08-30 16:02:21.732][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-08-30 16:02:21.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:21.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:21.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:21.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:21.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:21.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:21.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:21.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:21.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:21.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:21.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:21.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:21.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:21.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:21.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:21.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:21.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:21.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:21.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:21.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:21.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:21.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:21.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:21.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:21.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:21.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:21.804][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-08-30 16:02:21.805][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:21.807][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-08-30 16:02:21.809][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:21.810][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:21.812][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:21.813][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:21.814][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:21.815][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:21.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:21.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:21.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:21.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:21.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:21.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:21.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:21.833][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-08-30 16:02:21.836][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:21.838][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:21.839][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-08-30 16:02:22.215][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-08-30 16:02:22.590][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:22.592][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-08-30 16:02:22.597][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-08-30 16:02:22.601][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-08-30 16:02:22.603][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:22.605][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:22.606][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:22.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:22.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:22.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:22.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:22.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:22.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:22.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:22.623][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.625][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.627][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.634][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:22.635][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:22.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.640][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:22.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:22.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.645][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:22.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:22.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:22.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:22.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.656][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:22.657][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:22.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:22.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:22.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.675][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:22.677][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:22.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:22.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:22.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.686][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:22.687][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:22.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.691][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:22.693][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.695][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.697][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:22.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.702][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:22.704][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:22.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:22.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:22.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.713][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:22.714][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:22.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.718][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:22.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:22.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.724][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:22.725][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:22.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.727][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:22.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.734][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:22.736][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:22.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.740][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:22.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:22.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:22.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:22.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:22.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:22.800][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-08-30 16:02:22.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:22.839][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:22.843][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:22.845][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:22.846][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:22.848][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:02:22.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:22.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:22.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:22.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:22.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:22.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:22.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:22.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:22.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:22.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:22.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:22.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:22.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:22.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:22.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:22.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:22.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:22.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:22.893][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-08-30 16:02:22.894][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:22.896][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-08-30 16:02:22.898][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:22.899][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:22.900][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:22.902][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:22.903][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:22.904][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:22.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:22.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:22.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:22.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:22.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:22.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:22.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:22.925][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-08-30 16:02:22.929][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:22.930][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:22.932][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-08-30 16:02:23.305][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-08-30 16:02:23.677][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:23.680][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-08-30 16:02:23.684][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-08-30 16:02:23.688][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-08-30 16:02:23.689][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:23.691][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:23.692][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:23.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:23.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:23.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:23.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:23.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:23.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:23.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:23.709][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.711][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.720][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:23.721][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:23.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.725][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:23.727][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:23.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.731][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:23.732][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:23.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.736][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:23.738][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:23.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.742][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:23.743][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:23.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.745][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.747][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:23.748][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.752][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:23.754][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:23.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.758][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:23.759][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:23.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:23.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:23.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.768][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:23.770][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:23.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.772][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.774][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:23.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:23.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.779][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:23.781][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:23.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:23.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:23.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:23.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:23.843][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-08-30 16:02:23.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:23.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:23.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:23.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:23.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:23.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:23.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:23.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:23.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:23.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:23.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:23.884][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-08-30 16:02:23.886][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:23.888][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-08-30 16:02:23.889][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:23.891][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:23.892][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:23.893][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:23.894][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:23.896][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:23.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:23.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:23.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:23.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:23.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:23.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:23.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:23.917][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-08-30 16:02:23.920][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:23.922][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:23.923][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-08-30 16:02:24.296][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-08-30 16:02:24.670][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:24.673][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-08-30 16:02:24.677][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-08-30 16:02:24.680][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-08-30 16:02:24.682][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:24.684][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:24.685][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:24.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:24.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:24.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:24.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:24.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:24.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:24.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:24.702][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.703][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.712][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:24.713][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:24.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.717][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:24.719][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:24.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.723][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:24.724][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:24.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.728][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:24.729][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:24.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.733][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:24.734][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:24.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.738][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:24.739][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.742][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.743][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:24.744][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:24.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.748][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:24.750][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:24.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.752][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:24.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:24.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.759][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:24.760][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:24.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.764][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:24.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:24.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.769][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:24.771][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:24.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:24.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:24.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:24.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:24.833][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-08-30 16:02:24.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:24.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:24.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:24.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:24.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:24.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:24.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:24.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:24.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:24.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:24.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:24.873][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-08-30 16:02:24.874][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:24.876][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-08-30 16:02:24.878][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:24.879][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:24.881][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:24.882][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:24.883][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:24.884][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:24.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:24.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:24.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:24.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:24.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:24.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:24.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:24.906][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-08-30 16:02:24.909][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:24.911][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:24.912][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-08-30 16:02:25.285][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-08-30 16:02:25.659][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:25.661][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-08-30 16:02:25.666][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-08-30 16:02:25.670][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-08-30 16:02:25.672][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:25.674][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:25.676][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:25.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:25.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:25.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:25.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:25.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:25.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:25.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:25.693][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.694][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.697][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.703][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:25.705][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:25.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.707][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.708][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:25.710][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:25.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.712][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.714][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:25.715][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:25.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.719][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:25.720][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:25.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.724][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:25.725][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:25.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.729][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:25.731][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.733][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.735][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:25.736][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:25.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.740][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:25.741][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:25.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:25.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:25.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.751][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:25.752][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:25.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.756][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:25.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:25.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.761][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:25.762][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:25.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:25.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:25.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:25.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:25.823][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-08-30 16:02:25.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:25.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:25.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:25.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:25.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:25.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:25.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:25.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:25.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:25.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:25.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:25.861][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-08-30 16:02:25.863][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:25.864][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-08-30 16:02:25.866][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:25.867][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:25.869][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:25.870][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:25.871][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:25.872][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:25.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:25.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:25.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:25.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:25.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:25.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:25.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:25.899][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-08-30 16:02:25.903][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:25.904][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:25.906][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-08-30 16:02:26.281][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-08-30 16:02:26.669][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:26.672][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-08-30 16:02:26.676][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-08-30 16:02:26.679][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-08-30 16:02:26.681][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:26.683][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:26.684][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:26.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:26.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:26.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:26.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:26.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:26.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:26.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:26.701][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.702][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.711][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:26.713][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:26.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.717][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:26.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:26.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.722][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:26.723][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:26.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.727][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:26.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:26.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.733][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:26.734][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:26.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:26.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:26.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.743][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.744][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:26.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.753][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:26.755][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:26.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.759][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:26.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:26.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.764][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:26.765][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.769][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:26.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.774][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.776][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:26.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.793][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:26.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:26.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.799][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:26.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:26.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.804][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:26.805][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:26.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.809][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:26.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:26.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.814][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:26.815][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:26.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.819][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:26.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:26.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:26.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:26.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:26.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:26.875][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-08-30 16:02:26.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:26.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:26.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:26.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:26.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:26.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:26.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:26.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:26.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:26.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:26.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:26.904][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-08-30 16:02:26.906][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:26.912][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-08-30 16:02:26.914][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:26.916][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:26.917][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:26.919][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:26.920][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:26.921][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:26.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:26.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:26.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:26.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:26.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:26.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:26.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:26.938][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-08-30 16:02:26.941][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:26.942][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:26.944][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-08-30 16:02:27.318][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-08-30 16:02:27.700][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:27.702][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-08-30 16:02:27.707][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-08-30 16:02:27.711][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-08-30 16:02:27.713][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:27.714][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:27.716][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:27.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:27.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:27.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:27.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:27.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:27.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:27.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:27.732][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.734][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.743][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:27.744][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:27.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.748][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:27.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:27.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.753][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:27.754][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:27.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:27.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:27.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.764][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:27.765][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:27.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:27.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:27.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.774][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:27.775][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:27.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:27.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:27.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.784][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:27.786][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:27.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.798][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:27.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:27.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.803][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:27.804][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.808][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:27.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.813][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:27.814][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:27.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:27.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:27.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.823][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:27.825][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:27.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.829][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:27.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:27.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.834][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:27.835][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:27.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.839][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:27.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:27.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.844][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:27.845][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:27.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.849][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:27.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:27.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:27.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:27.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:27.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:27.904][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-08-30 16:02:27.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:27.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:27.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:27.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:27.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:27.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:27.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:27.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:27.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:27.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:27.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:27.938][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-08-30 16:02:27.939][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:27.942][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-08-30 16:02:27.943][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:27.945][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:27.946][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:27.947][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:27.948][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:27.950][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:27.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:27.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:27.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:27.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:27.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:27.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:27.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:27.966][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-08-30 16:02:27.970][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:27.971][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:27.973][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-08-30 16:02:28.352][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-08-30 16:02:28.733][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:28.735][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-08-30 16:02:28.739][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-08-30 16:02:28.743][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-08-30 16:02:28.744][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:28.746][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:28.747][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:28.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:28.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:28.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:28.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:28.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:28.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:28.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:28.763][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.773][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:28.775][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:28.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.778][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:28.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:28.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.783][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:28.785][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:28.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:28.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:28.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.801][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:28.802][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:28.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.806][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:28.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:28.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.811][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:28.813][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:28.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:28.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:28.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.821][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:28.823][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:28.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.827][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:28.828][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.832][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:28.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.837][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:28.838][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:28.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:28.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:28.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.847][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:28.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:28.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.850][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:28.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:28.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.857][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:28.858][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:28.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.862][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:28.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:28.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.867][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:28.869][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:28.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.872][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:28.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:28.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:28.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:28.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:28.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:28.931][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-08-30 16:02:28.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:28.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:28.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:28.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:28.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:28.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:28.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:28.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:28.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:28.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:28.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:28.960][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-08-30 16:02:28.961][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:28.963][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-08-30 16:02:28.965][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:28.966][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:28.967][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:28.968][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:28.970][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:28.971][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:28.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:28.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:28.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:28.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:28.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:28.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:28.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:28.987][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-08-30 16:02:28.990][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:28.992][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:28.993][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-08-30 16:02:29.367][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-08-30 16:02:29.748][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:29.751][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-08-30 16:02:29.755][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-08-30 16:02:29.758][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-08-30 16:02:29.760][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:29.761][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:29.763][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:29.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:29.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:29.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:29.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:29.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:29.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:29.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:29.779][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.796][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:29.798][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:29.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.802][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:29.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:29.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.807][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:29.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:29.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.812][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:29.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:29.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.817][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:29.818][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:29.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:29.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:29.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.827][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:29.828][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:29.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:29.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:29.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.837][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:29.838][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:29.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.842][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:29.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.847][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:29.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.852][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:29.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:29.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:29.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:29.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.862][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:29.864][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:29.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:29.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:29.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.873][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:29.874][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:29.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.878][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:29.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:29.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.883][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:29.884][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:29.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.888][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:29.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:29.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:29.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:29.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:29.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:29.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:29.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:29.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:29.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:29.947][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-08-30 16:02:29.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:29.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:29.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:29.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:29.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:29.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:29.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:29.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:29.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:29.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:29.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:29.976][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-08-30 16:02:29.977][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:29.979][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-08-30 16:02:29.980][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:29.982][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:29.983][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:29.984][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:29.985][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:29.987][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:29.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:29.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:29.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:29.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:29.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:30.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:30.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:30.003][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2025-08-30 16:02:30.006][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:30.007][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:30.009][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2025-08-30 16:02:30.383][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2025-08-30 16:02:30.765][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:30.768][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2025-08-30 16:02:30.805][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2025-08-30 16:02:30.808][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2025-08-30 16:02:30.810][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:30.812][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:30.813][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:30.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:30.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:30.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:30.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:30.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:30.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:30.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:30.837][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.838][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.847][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:30.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:30.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.852][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:30.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:30.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.858][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:30.859][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:30.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.863][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:30.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:30.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.868][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:30.869][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:30.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:30.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:30.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.878][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:30.880][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:30.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:30.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:30.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.889][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:30.890][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:30.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.894][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:30.896][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.900][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:30.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:30.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.905][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:30.906][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:30.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:30.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:30.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.915][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:30.916][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:30.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.920][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:30.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:30.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.925][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:30.927][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:30.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.930][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:30.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:30.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.935][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:30.937][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:30.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.941][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:30.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:30.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:30.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:30.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:30.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:30.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:30.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:31.000][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-08-30 16:02:31.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:31.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:31.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:31.029][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-08-30 16:02:31.031][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:31.032][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-08-30 16:02:31.034][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:31.035][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:31.037][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:31.038][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:31.039][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:31.040][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:31.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:31.056][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2025-08-30 16:02:31.060][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:31.061][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:31.067][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2025-08-30 16:02:31.444][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2025-08-30 16:02:31.821][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:31.824][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2025-08-30 16:02:31.940][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2025-08-30 16:02:31.943][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2025-08-30 16:02:31.945][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:31.947][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:31.948][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:31.950][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:31.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:31.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:31.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:31.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:31.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:31.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:31.968][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.969][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.971][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:31.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:31.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.978][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:31.980][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:31.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.983][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:31.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:31.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.989][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:31.990][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:31.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.994][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:31.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:31.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:31.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:31.999][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:32.000][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:32.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:32.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:32.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.009][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:32.011][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:32.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:32.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:32.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.020][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:32.021][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:32.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.025][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:32.027][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:32.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.031][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:32.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:32.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.036][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.037][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:32.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.047][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:32.048][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:32.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.051][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:32.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:32.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.067][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:32.068][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:32.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.072][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:32.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:32.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.077][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:32.079][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:32.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.082][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:32.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:32.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:32.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:32.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:32.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:32.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:32.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:32.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:32.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:32.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:32.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:32.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:32.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:32.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:32.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:32.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:32.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:32.142][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-08-30 16:02:32.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:32.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:32.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:32.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:32.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:32.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:32.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:32.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:32.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:32.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:32.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:32.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:32.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:32.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:32.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:32.173][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-08-30 16:02:32.174][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:32.176][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-08-30 16:02:32.178][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:32.179][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:32.180][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:32.181][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:32.187][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:32.188][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:32.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:32.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:32.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:32.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:32.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:32.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:32.204][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2025-08-30 16:02:32.208][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:32.209][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:32.211][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2025-08-30 16:02:32.585][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2025-08-30 16:02:32.966][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:32.969][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2025-08-30 16:02:32.973][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2025-08-30 16:02:32.976][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2025-08-30 16:02:32.978][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:32.980][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:32.982][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:32.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:32.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:32.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:32.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:32.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:32.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:32.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:32.999][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.000][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.009][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:33.011][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:33.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.015][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:33.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:33.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.020][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:33.021][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:33.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:33.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:33.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.030][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:33.032][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:33.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:33.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:33.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.041][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:33.042][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:33.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.046][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:33.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:33.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.051][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:33.052][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:33.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.056][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:33.058][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.067][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.069][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:33.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.074][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.075][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:33.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.084][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:33.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:33.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:33.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:33.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.095][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:33.096][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:33.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.100][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:33.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:33.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:33.107][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:33.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:33.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:33.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:33.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:33.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:33.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:33.166][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-08-30 16:02:33.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:33.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:33.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:33.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:33.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:33.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:33.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:33.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:33.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:33.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:33.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:33.202][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-08-30 16:02:33.204][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:33.206][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-08-30 16:02:33.207][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:33.209][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:33.210][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:33.211][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:33.213][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:33.214][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:33.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:33.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:33.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:33.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:33.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:33.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:33.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:33.231][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2025-08-30 16:02:33.235][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:33.236][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:33.238][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2025-08-30 16:02:33.616][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2025-08-30 16:02:33.991][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:33.994][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2025-08-30 16:02:33.999][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2025-08-30 16:02:34.002][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2025-08-30 16:02:34.004][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:34.005][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:34.007][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:34.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:34.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:34.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:34.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:34.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:34.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:34.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:34.024][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.026][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.036][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:34.037][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:34.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.041][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:34.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:34.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.046][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:34.048][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:34.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.051][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.052][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:34.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:34.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.057][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:34.059][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:34.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.070][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:34.072][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:34.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.076][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:34.077][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:34.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.081][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:34.083][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.087][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:34.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.092][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.094][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:34.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.103][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:34.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:34.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:34.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:34.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.114][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:34.116][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:34.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.120][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:34.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:34.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.125][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:34.127][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:34.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:34.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:34.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:34.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:34.180][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-08-30 16:02:34.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:34.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:34.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:34.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:34.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:34.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:34.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:34.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:34.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:34.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:34.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:34.215][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-08-30 16:02:34.216][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:34.218][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-08-30 16:02:34.219][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:34.221][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:34.222][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:34.223][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:34.224][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:34.226][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:34.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:34.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:34.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:34.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:34.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:34.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:34.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:34.242][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2025-08-30 16:02:34.246][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:34.247][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:34.249][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2025-08-30 16:02:34.621][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2025-08-30 16:02:34.996][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:34.999][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2025-08-30 16:02:35.003][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2025-08-30 16:02:35.006][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2025-08-30 16:02:35.008][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:35.010][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:35.011][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:35.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:35.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:35.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:35.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:35.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:35.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:35.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:35.027][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.029][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.031][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.038][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:35.039][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:35.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.043][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:35.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:35.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.048][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:35.050][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:35.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.061][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:35.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:35.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.067][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:35.068][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:35.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.072][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:35.073][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:35.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.077][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:35.078][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:35.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.082][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:35.084][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:35.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.086][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.088][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:35.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:35.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.093][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:35.094][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:35.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:35.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:35.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.103][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:35.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:35.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:35.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:35.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.114][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:35.115][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:35.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.121][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:35.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:35.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.126][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:35.128][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:35.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:35.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:35.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:35.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:35.187][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-08-30 16:02:35.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:35.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:35.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:35.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:35.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:35.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:35.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:35.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:35.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:35.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:35.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:35.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:35.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:35.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:35.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:35.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:35.216][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-08-30 16:02:35.217][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:35.219][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-08-30 16:02:35.221][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:35.222][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:35.224][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:35.225][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:35.226][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:35.228][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:35.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:35.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:35.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:35.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:35.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:35.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:35.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:35.244][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2025-08-30 16:02:35.248][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:35.249][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:35.251][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2025-08-30 16:02:35.623][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2025-08-30 16:02:35.998][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:36.000][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2025-08-30 16:02:36.004][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2025-08-30 16:02:36.007][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2025-08-30 16:02:36.009][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:36.011][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:36.012][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:36.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:36.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:36.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:36.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:36.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:36.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:36.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:36.028][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.039][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:36.040][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:36.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.051][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:36.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:36.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.057][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:36.058][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:36.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.062][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:36.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:36.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.067][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:36.068][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:36.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.070][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:36.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.077][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:36.079][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:36.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:36.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:36.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.088][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:36.089][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:36.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.091][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.093][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:36.094][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.098][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:36.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.103][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.105][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:36.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.114][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:36.115][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:36.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:36.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:36.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.125][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:36.126][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:36.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.130][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:36.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:36.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.136][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:36.137][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:36.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.141][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:36.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:36.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:36.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:36.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:36.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:36.328][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-08-30 16:02:36.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:36.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:36.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:36.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:36.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:36.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:36.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:36.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:36.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:36.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:36.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:36.357][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-08-30 16:02:36.358][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:36.360][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-08-30 16:02:36.362][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:36.363][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:36.364][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:36.366][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:36.367][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:36.368][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:36.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:36.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:36.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:36.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:36.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:36.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:36.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:36.384][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2025-08-30 16:02:36.388][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:36.389][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:36.390][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2025-08-30 16:02:36.765][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2025-08-30 16:02:37.152][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:37.154][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2025-08-30 16:02:37.158][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2025-08-30 16:02:37.161][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2025-08-30 16:02:37.163][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:37.165][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:37.166][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:37.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:37.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:37.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:37.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:37.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:37.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:37.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:37.183][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.184][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.193][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:37.194][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:37.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.198][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:37.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.203][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:37.205][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:37.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.209][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:37.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:37.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.215][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:37.216][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:37.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:37.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:37.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:37.228][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:37.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:37.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:37.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.239][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:37.241][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:37.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.244][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.245][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:37.247][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.252][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:37.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.258][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.259][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.262][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:37.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.270][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:37.272][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:37.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:37.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:37.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.282][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:37.284][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:37.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.289][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:37.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:37.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.295][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:37.296][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:37.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.299][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.301][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:37.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:37.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:37.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:37.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:37.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:37.367][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-08-30 16:02:37.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:37.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:37.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:37.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:37.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:37.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:37.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:37.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:37.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:37.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:37.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:37.402][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-08-30 16:02:37.403][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:37.406][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-08-30 16:02:37.408][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:37.409][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:37.411][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:37.412][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:37.414][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:37.415][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:37.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:37.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:37.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:37.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:37.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:37.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:37.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:37.435][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2025-08-30 16:02:37.439][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:37.441][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:37.443][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2025-08-30 16:02:37.817][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2025-08-30 16:02:38.197][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:38.200][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2025-08-30 16:02:38.204][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2025-08-30 16:02:38.208][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2025-08-30 16:02:38.210][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:38.211][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:38.213][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:38.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:38.234][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.235][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:38.249][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:38.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.254][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:38.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:38.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.260][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:38.261][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:38.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:38.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:38.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.272][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:38.274][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:38.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:38.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:38.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.284][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:38.286][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:38.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:38.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:38.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.297][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:38.298][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:38.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.303][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:38.304][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.317][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.318][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:38.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.323][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.324][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.327][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:38.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.333][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:38.334][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:38.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:38.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:38.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.343][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:38.345][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:38.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.347][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:38.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:38.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.353][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:38.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:38.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.358][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:38.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:38.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:38.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:38.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:38.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:38.413][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-08-30 16:02:38.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:38.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:38.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:38.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:38.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:38.442][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-08-30 16:02:38.443][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:38.445][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-08-30 16:02:38.447][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:38.448][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:38.450][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:38.451][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:38.452][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:38.453][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:38.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:38.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:38.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:38.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:38.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:38.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:38.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:38.470][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2025-08-30 16:02:38.473][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:38.474][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:38.476][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2025-08-30 16:02:38.849][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2025-08-30 16:02:39.237][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:39.240][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2025-08-30 16:02:39.244][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2025-08-30 16:02:39.247][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2025-08-30 16:02:39.249][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:39.251][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:39.252][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:39.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:39.269][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.270][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.273][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.279][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:39.281][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:39.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.285][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:39.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:39.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.290][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:39.291][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:39.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.295][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:39.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:39.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.300][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:39.302][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:39.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:39.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:39.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.311][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:39.312][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:39.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.314][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:39.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:39.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.321][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:39.322][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:39.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.325][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.326][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:39.328][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.332][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:39.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.337][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:39.338][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:39.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:39.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:39.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.347][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:39.349][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:39.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.351][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:39.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:39.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.358][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:39.359][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:39.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.363][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:39.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:39.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.368][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:39.370][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:39.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.374][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:39.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:39.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:39.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:39.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:39.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.430][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-08-30 16:02:39.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:39.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:39.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:39.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:39.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:39.460][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-08-30 16:02:39.461][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:39.463][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-08-30 16:02:39.465][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:39.466][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:39.468][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:39.469][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:39.470][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:39.471][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:39.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:39.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:39.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:39.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:39.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:39.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:39.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:39.488][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2025-08-30 16:02:39.492][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:39.493][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:39.495][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2025-08-30 16:02:39.878][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2025-08-30 16:02:40.258][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:40.260][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2025-08-30 16:02:40.265][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2025-08-30 16:02:40.268][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2025-08-30 16:02:40.270][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:40.271][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:40.273][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:40.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:40.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:40.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:40.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:40.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:40.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:40.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:40.299][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.300][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.303][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.310][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:40.311][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:40.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.315][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:40.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:40.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.320][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:40.321][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:40.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:40.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.330][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:40.331][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:40.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:40.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:40.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.340][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:40.342][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:40.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.344][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:40.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:40.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.351][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:40.352][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:40.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.356][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:40.357][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.359][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.361][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:40.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.366][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:40.367][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:40.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:40.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:40.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.376][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:40.378][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:40.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:40.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:40.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.387][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:40.388][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:40.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.392][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:40.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:40.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.397][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:40.398][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:40.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.402][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:40.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:40.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:40.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:40.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:40.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:40.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:40.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:40.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:40.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:40.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:40.458][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-08-30 16:02:40.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:40.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:40.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:40.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:40.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:40.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:40.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:40.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:40.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:40.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:40.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:40.488][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-08-30 16:02:40.490][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:40.492][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-08-30 16:02:40.493][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:40.495][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:40.496][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:40.497][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:40.499][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:40.500][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:40.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:40.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:40.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:40.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:40.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:40.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:40.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:40.517][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2025-08-30 16:02:40.520][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:40.522][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:40.524][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2025-08-30 16:02:40.900][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2025-08-30 16:02:41.285][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:41.288][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2025-08-30 16:02:41.292][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2025-08-30 16:02:41.295][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2025-08-30 16:02:41.297][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:41.299][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:41.300][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:41.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:41.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:41.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:41.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:41.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:41.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:41.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:41.317][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.318][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.320][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.327][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:41.328][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:41.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.332][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:41.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:41.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.337][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:41.338][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:41.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.343][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:41.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:41.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.348][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:41.349][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:41.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:41.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:41.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.358][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:41.360][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:41.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:41.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:41.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.369][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:41.370][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:41.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.374][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:41.376][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.380][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:41.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.385][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:41.386][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:41.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:41.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:41.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.395][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:41.396][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:41.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:41.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:41.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.405][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:41.407][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:41.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.411][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:41.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:41.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.416][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:41.418][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:41.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:41.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:41.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:41.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:41.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:41.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:41.477][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-08-30 16:02:41.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:41.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:41.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:41.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:41.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:41.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:41.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:41.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:41.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:41.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:41.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:41.514][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-08-30 16:02:41.515][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:41.517][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-08-30 16:02:41.519][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:41.520][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:41.521][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:41.523][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:41.524][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:41.526][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:41.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:41.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:41.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:41.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:41.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:41.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:41.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:41.542][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2025-08-30 16:02:41.546][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:41.547][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:41.549][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2025-08-30 16:02:41.941][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2025-08-30 16:02:42.332][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:42.335][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2025-08-30 16:02:42.339][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2025-08-30 16:02:42.343][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2025-08-30 16:02:42.345][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:42.346][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:42.348][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:42.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.364][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.366][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.374][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:42.376][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:42.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.380][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:42.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:42.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.385][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:42.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:42.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:42.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:42.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.395][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:42.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:42.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:42.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:42.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.405][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:42.406][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:42.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:42.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.416][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:42.417][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:42.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.419][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.421][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:42.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.426][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:42.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.431][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:42.433][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:42.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:42.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:42.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.441][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:42.443][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:42.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:42.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:42.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.452][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:42.453][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:42.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.457][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:42.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:42.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:42.463][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:42.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.467][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:42.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:42.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:42.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:42.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:42.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.520][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-08-30 16:02:42.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.560][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:42.564][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:42.565][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:42.567][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:42.569][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:02:42.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:42.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:42.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:42.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:42.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:42.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:42.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:42.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:42.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:42.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:42.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:42.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:43.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:43.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:43.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:43.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:43.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:43.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:43.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:43.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:43.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:43.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:43.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:43.256][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:43.260][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:43.262][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:43.264][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:43.649][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:44.022][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:44.025][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2025-08-30 16:02:44.030][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2025-08-30 16:02:44.035][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:44.039][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:44.041][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:44.043][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:44.434][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:44.809][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:44.812][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2025-08-30 16:02:44.817][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2025-08-30 16:02:44.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:44.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:44.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:44.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:44.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:44.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:44.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:44.834][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-08-30 16:02:44.835][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:44.837][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-08-30 16:02:44.839][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:44.840][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:44.841][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:44.843][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:44.844][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:44.845][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:44.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:44.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:44.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:44.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:44.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:44.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:44.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:44.863][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2025-08-30 16:02:44.867][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:44.868][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:44.870][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2025-08-30 16:02:45.253][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2025-08-30 16:02:45.642][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:45.644][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2025-08-30 16:02:45.649][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2025-08-30 16:02:45.652][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2025-08-30 16:02:45.654][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:45.655][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:45.657][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:45.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.675][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.676][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.685][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:45.686][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:45.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.690][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:45.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:45.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.695][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:45.696][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:45.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.698][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.700][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:45.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:45.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.705][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:45.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:45.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:45.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:45.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.715][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:45.716][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:45.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:45.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:45.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.725][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:45.727][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:45.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.730][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:45.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:45.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.735][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:45.737][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:45.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.739][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.740][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:45.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:45.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.745][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.747][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.749][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.755][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:45.757][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:45.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:45.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:45.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.766][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:45.767][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:45.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.771][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:45.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:45.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.776][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:45.777][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:45.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.781][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:45.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:45.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:45.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:45.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:45.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:45.836][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-08-30 16:02:45.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:45.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:45.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:45.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:45.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:45.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:45.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:45.897][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-08-30 16:02:45.899][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:45.901][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-08-30 16:02:45.904][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:45.905][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:45.907][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:45.908][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:45.909][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:45.911][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:45.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:45.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:45.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:45.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:45.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:45.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:45.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:45.958][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2025-08-30 16:02:45.962][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:45.963][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:45.965][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2025-08-30 16:02:46.453][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2025-08-30 16:02:46.850][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:46.853][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2025-08-30 16:02:46.857][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2025-08-30 16:02:46.861][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2025-08-30 16:02:46.863][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:46.864][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:46.866][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:46.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:46.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:46.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:46.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:46.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:46.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:46.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:46.882][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:46.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:46.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.893][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:46.894][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:46.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.896][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.898][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:46.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:46.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.903][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:46.905][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:46.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.907][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.909][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:46.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.915][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:46.916][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:46.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:46.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.925][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:46.927][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:46.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:46.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:46.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.936][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:46.937][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:46.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.941][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:46.943][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:46.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.946][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:46.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:46.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.951][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.953][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.955][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:46.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.962][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:46.963][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:46.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.965][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.967][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:46.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:46.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.972][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:46.974][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:46.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.978][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:46.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:46.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.983][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:46.984][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:46.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.988][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:46.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:46.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:46.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:46.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:46.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:46.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:47.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:47.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:47.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.046][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-08-30 16:02:47.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.084][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:47.089][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:47.090][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:47.092][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:47.093][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:02:47.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.732][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:47.736][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:47.738][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-30 16:02:47.739][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:47.741][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-30 16:02:47.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:47.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:47.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:47.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:47.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:47.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:47.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:47.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:47.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:47.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:47.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:47.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:48.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.377][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:48.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:02:48.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:02:48.393][biodb::testThat]
biodb.INFO [2025-08-30 16:02:48.394][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-30 16:02:48.395][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:02:48.397][biodb::testThat]
biodb.TRACE[2025-08-30 16:02:48.400][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:48.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:48.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.406][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:48.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:48.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.412][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:02:48.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:02:48.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:48.501][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:48.505][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:48.506][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:02:48.508][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:48.510][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:02:48.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.541][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:48.545][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:02:48.547][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:02:48.549][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:02:48.550][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:02:48.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:48.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:48.611][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:48.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.635][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.636][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:48.638][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:48.639][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:48.640][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.641][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.647][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.651][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.652][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.653][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.658][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:48.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.690][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:02:48.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.716][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:48.717][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:48.718][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:48.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.731][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.732][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.737][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.738][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:48.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.754][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:02:48.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:48.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.779][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.781][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:48.782][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:48.783][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:48.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.790][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.796][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:48.797][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.802][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:48.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:48.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:48.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:48.819][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:02:48.820][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:48.821][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:48.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:48.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:48.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:48.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:48.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:48.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:48.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:48.840][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:48.844][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:48.845][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:48.848][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:49.223][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:49.596][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:49.599][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content"
biodb.TRACE[2025-08-30 16:02:49.604][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.request"
biodb.DEBUG[2025-08-30 16:02:49.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:49.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:49.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:49.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:49.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:49.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:49.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:49.621][private$loadEntries] Creating entries from ids [1]: "113227".
biodb.DEBUG[2025-08-30 16:02:49.623][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:49.624][cch$loadFileContent] Trying to load 1 files from cache: [1]: "113227".
biodb.TRACE[2025-08-30 16:02:49.626][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:49.627][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:49.629][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:49.630][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:49.631][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:49.632][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:49.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:49.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:49.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:49.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:49.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:49.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:49.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:49.649][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.DEBUG[2025-08-30 16:02:49.652][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:49.653][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:49.655][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.TRACE[2025-08-30 16:02:50.031][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227).
biodb.DEBUG[2025-08-30 16:02:50.409][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:50.411][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.content"
biodb.TRACE[2025-08-30 16:02:50.416][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.request"
biodb.TRACE[2025-08-30 16:02:50.419][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/113227.xml"
biodb.DEBUG[2025-08-30 16:02:50.421][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:50.423][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:50.424][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:50.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:50.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:50.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:50.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:50.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:50.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:50.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:50.441][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.442][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.451][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:50.453][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:50.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.457][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:50.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:50.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.462][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:50.464][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:50.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.468][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:50.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:50.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.473][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:50.474][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:50.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:50.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:50.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.483][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:50.485][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:50.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:50.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:50.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.494][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:50.495][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:50.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.499][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:50.500][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.504][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:50.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.511][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:50.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.520][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:50.522][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:50.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.524][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:50.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:50.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.531][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:50.533][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:50.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.537][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:50.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:50.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:50.544][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:50.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.547][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:50.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:50.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:50.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:50.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:50.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:50.615][self$createEntryFromContent] Accession numbers: 113227.
biodb.TRACE[2025-08-30 16:02:50.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:50.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:50.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:50.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:50.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:50.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:50.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:50.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:50.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:50.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:50.645][private$loadEntries] Creating entries from ids [1]: "169712".
biodb.DEBUG[2025-08-30 16:02:50.646][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:50.648][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169712".
biodb.TRACE[2025-08-30 16:02:50.649][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:50.651][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:50.652][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:50.653][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:50.655][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:50.656][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:50.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:50.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:50.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:50.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:50.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:50.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:50.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:50.672][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.DEBUG[2025-08-30 16:02:50.675][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:50.677][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:50.678][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.TRACE[2025-08-30 16:02:51.062][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712).
biodb.DEBUG[2025-08-30 16:02:51.441][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:51.443][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.content"
biodb.TRACE[2025-08-30 16:02:51.448][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.request"
biodb.TRACE[2025-08-30 16:02:51.451][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169712.xml"
biodb.DEBUG[2025-08-30 16:02:51.453][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:51.455][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:51.456][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:51.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:51.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:51.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:51.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:51.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:51.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:51.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:51.472][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.474][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.483][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:51.484][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:51.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.488][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:51.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:51.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.493][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:51.494][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:51.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.498][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:51.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:51.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.503][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:51.505][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:51.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.507][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:51.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:51.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.514][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:51.515][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:51.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.517][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:51.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:51.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.524][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:51.525][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:51.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.528][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.530][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:51.532][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.534][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.535][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:51.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.541][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.542][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:51.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.552][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:51.553][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:51.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:51.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:51.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.563][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:51.564][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:51.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.568][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:51.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:51.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.573][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:51.574][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:51.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.578][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:51.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:51.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:51.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:51.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:51.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:51.634][self$createEntryFromContent] Accession numbers: 169712.
biodb.TRACE[2025-08-30 16:02:51.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:51.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:51.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:51.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:51.651][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:51.655][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:51.657][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:51.659][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:52.046][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:52.420][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:52.422][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content"
biodb.TRACE[2025-08-30 16:02:52.427][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.request"
biodb.DEBUG[2025-08-30 16:02:52.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:52.444][private$loadEntries] Creating entries from ids [1]: "4781".
biodb.DEBUG[2025-08-30 16:02:52.445][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:52.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4781".
biodb.TRACE[2025-08-30 16:02:52.449][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:52.450][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:52.452][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:52.453][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:52.454][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:52.455][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:52.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:52.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:52.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:52.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:52.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:52.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:52.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:52.472][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.DEBUG[2025-08-30 16:02:52.476][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:52.477][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:52.479][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.TRACE[2025-08-30 16:02:52.866][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781).
biodb.DEBUG[2025-08-30 16:02:53.268][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:53.270][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.content"
biodb.TRACE[2025-08-30 16:02:53.275][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.request"
biodb.TRACE[2025-08-30 16:02:53.278][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4781.xml"
biodb.DEBUG[2025-08-30 16:02:53.280][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:53.281][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:53.282][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:53.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:53.299][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.300][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.303][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.309][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:53.311][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:53.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.314][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:53.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:53.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.319][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:53.321][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:53.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:53.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:53.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.330][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:53.331][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:53.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:53.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:53.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.341][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:53.342][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:53.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:53.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:53.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.351][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:53.352][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:53.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.356][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:53.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:53.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.374][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:53.376][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.379][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:53.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.384][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.386][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:53.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.395][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:53.396][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:53.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:53.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:53.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.405][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:53.406][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:53.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.410][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:53.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:53.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.415][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:53.417][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:53.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.419][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.420][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:53.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:53.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:53.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:53.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:53.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.479][self$createEntryFromContent] Accession numbers: 4781.
biodb.TRACE[2025-08-30 16:02:53.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:53.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:53.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:53.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:53.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:53.511][private$loadEntries] Creating entries from ids [1]: "16587".
biodb.DEBUG[2025-08-30 16:02:53.512][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:53.514][cch$loadFileContent] Trying to load 1 files from cache: [1]: "16587".
biodb.TRACE[2025-08-30 16:02:53.516][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:53.517][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:53.519][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:53.520][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:53.521][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:53.522][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:53.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:53.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:53.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:53.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:53.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:53.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:53.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:53.539][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.DEBUG[2025-08-30 16:02:53.543][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:53.544][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:53.546][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.TRACE[2025-08-30 16:02:53.928][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587).
biodb.DEBUG[2025-08-30 16:02:54.330][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:54.333][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.content"
biodb.TRACE[2025-08-30 16:02:54.338][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.request"
biodb.TRACE[2025-08-30 16:02:54.341][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/16587.xml"
biodb.DEBUG[2025-08-30 16:02:54.343][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:54.345][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:54.346][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:54.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:54.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:54.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:54.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:54.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:54.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:54.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:54.363][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.365][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.374][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:54.375][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:54.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.379][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:54.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:54.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.384][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:54.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:54.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:54.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:54.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.395][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:54.396][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:54.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:54.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:54.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.405][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:54.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:54.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:54.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:54.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.416][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:54.417][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:54.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.421][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:54.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:54.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.426][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:54.428][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.432][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:54.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.437][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:54.439][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:54.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:54.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:54.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.448][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:54.449][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:54.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.451][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:54.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:54.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.459][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:54.460][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:54.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.464][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:54.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:54.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.469][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:54.471][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:54.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.475][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:54.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:54.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:54.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:54.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:54.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:54.531][self$createEntryFromContent] Accession numbers: 16587.
biodb.TRACE[2025-08-30 16:02:54.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:54.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:54.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:54.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:54.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:54.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:54.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:54.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:54.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:54.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:54.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:54.562][private$loadEntries] Creating entries from ids [1]: "19804".
biodb.DEBUG[2025-08-30 16:02:54.563][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:54.565][cch$loadFileContent] Trying to load 1 files from cache: [1]: "19804".
biodb.TRACE[2025-08-30 16:02:54.567][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:54.568][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:54.569][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:54.571][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:54.572][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:54.573][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:54.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:54.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:54.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:54.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:54.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:54.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:54.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:54.590][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.DEBUG[2025-08-30 16:02:54.594][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:54.595][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:54.597][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.TRACE[2025-08-30 16:02:54.971][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804).
biodb.DEBUG[2025-08-30 16:02:55.365][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:55.379][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.content"
biodb.TRACE[2025-08-30 16:02:55.383][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.request"
biodb.TRACE[2025-08-30 16:02:55.387][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19804.xml"
biodb.DEBUG[2025-08-30 16:02:55.389][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:55.391][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:55.392][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:55.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:55.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:55.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:55.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:55.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:55.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:55.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:55.409][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.411][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.420][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:55.421][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:55.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.425][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:55.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:55.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.430][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:55.432][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:55.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.435][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:55.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:55.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.441][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:55.442][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:55.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.444][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:55.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:55.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.451][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:55.452][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:55.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:55.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:55.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.461][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:55.462][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:55.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.466][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:55.468][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.471][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:55.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.476][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:55.478][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:55.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:55.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:55.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.487][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:55.488][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:55.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:55.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:55.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.497][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:55.498][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:55.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.502][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:55.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:55.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.507][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:55.509][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:55.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.512][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:55.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:55.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:55.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:55.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:55.569][self$createEntryFromContent] Accession numbers: 19804.
biodb.TRACE[2025-08-30 16:02:55.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:55.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:55.617][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:02:55.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:55.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:55.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:55.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:55.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:55.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:55.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:55.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.674][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:55.675][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:55.677][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:55.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.679][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.684][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.690][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.695][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.696][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:55.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.713][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:02:55.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:55.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:55.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:55.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:55.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:55.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:55.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:55.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.738][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:55.740][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:55.741][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:55.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.743][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.748][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.752][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.753][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.754][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.755][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.760][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:55.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.777][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:02:55.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:55.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:55.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:55.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:55.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:55.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:55.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:55.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.807][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:02:55.808][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:02:55.809][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:02:55.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.822][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:02:55.824][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.825][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.828][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:02:55.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:55.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:55.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:55.844][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:02:55.846][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:02:55.847][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:02:55.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:55.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:55.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:55.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:55.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:55.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:55.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:55.864][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:02:55.868][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:55.869][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:55.872][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:02:56.274][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:02:56.654][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:56.657][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content"
biodb.TRACE[2025-08-30 16:02:56.662][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.request"
biodb.DEBUG[2025-08-30 16:02:56.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:56.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:56.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:56.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:56.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:56.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:56.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:56.678][private$loadEntries] Creating entries from ids [1]: "159630".
biodb.DEBUG[2025-08-30 16:02:56.680][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:56.682][cch$loadFileContent] Trying to load 1 files from cache: [1]: "159630".
biodb.TRACE[2025-08-30 16:02:56.683][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:56.684][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:56.686][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:56.687][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:56.688][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:56.690][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:56.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:56.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:56.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:56.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:56.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:56.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:56.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:56.706][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.DEBUG[2025-08-30 16:02:56.710][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:56.711][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:56.713][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.TRACE[2025-08-30 16:02:57.091][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630).
biodb.DEBUG[2025-08-30 16:02:57.471][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:57.474][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.content"
biodb.TRACE[2025-08-30 16:02:57.479][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.request"
biodb.TRACE[2025-08-30 16:02:57.484][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/159630.xml"
biodb.DEBUG[2025-08-30 16:02:57.486][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:57.488][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:57.490][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:57.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:57.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:57.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:57.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:57.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:57.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:57.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:57.511][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.512][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.521][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:57.522][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:57.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.526][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:57.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:57.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.532][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:57.533][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:57.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.537][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:57.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:57.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.542][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:57.543][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:57.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:57.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:57.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.553][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:57.554][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:57.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:57.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:57.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.563][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:57.564][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:57.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.567][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.568][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:57.570][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.574][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:57.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.579][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:57.580][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:57.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:57.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:57.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.590][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:57.591][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:57.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:57.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:57.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.600][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:57.602][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:57.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.606][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:57.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:57.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.611][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:57.612][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:57.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.616][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:57.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:57.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:57.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:57.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:57.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:57.674][self$createEntryFromContent] Accession numbers: 159630.
biodb.TRACE[2025-08-30 16:02:57.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:57.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:57.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:57.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:57.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:57.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:57.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:57.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:57.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:57.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:57.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:57.705][private$loadEntries] Creating entries from ids [1]: "160202".
biodb.DEBUG[2025-08-30 16:02:57.707][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:57.709][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160202".
biodb.TRACE[2025-08-30 16:02:57.710][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:57.712][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:57.713][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:57.715][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:57.716][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:57.717][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:57.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:57.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:57.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:57.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:57.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:57.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:57.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:57.735][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.DEBUG[2025-08-30 16:02:57.739][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:57.741][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:57.742][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.TRACE[2025-08-30 16:02:58.125][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202).
biodb.DEBUG[2025-08-30 16:02:58.503][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:58.506][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.content"
biodb.TRACE[2025-08-30 16:02:58.510][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.request"
biodb.TRACE[2025-08-30 16:02:58.513][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160202.xml"
biodb.DEBUG[2025-08-30 16:02:58.515][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:58.517][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:58.518][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:58.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:58.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:58.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:58.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:58.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:58.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:58.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:58.534][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.535][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.538][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.544][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:58.546][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:58.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.549][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:58.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:58.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.567][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:58.569][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:58.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.571][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.573][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:58.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:58.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.578][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:58.579][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:58.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:58.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:58.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.588][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:58.589][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:58.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.592][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:58.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:58.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:58.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:58.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.605][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:58.606][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.608][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.610][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:58.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:58.617][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:58.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:58.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:58.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.626][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:58.627][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:58.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.629][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:58.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:58.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.636][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:58.637][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:58.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:58.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:58.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.646][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:58.647][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:58.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.651][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:58.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:58.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:58.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:58.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:58.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:58.705][self$createEntryFromContent] Accession numbers: 160202.
biodb.TRACE[2025-08-30 16:02:58.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:58.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:58.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:58.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:58.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:58.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:58.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:58.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:58.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:58.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:58.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:58.737][private$loadEntries] Creating entries from ids [1]: "160393".
biodb.DEBUG[2025-08-30 16:02:58.739][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:58.741][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160393".
biodb.TRACE[2025-08-30 16:02:58.743][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:58.744][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:58.745][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:58.747][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:58.748][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:58.749][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:58.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:58.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:58.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:58.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:58.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:58.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:58.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:58.766][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.DEBUG[2025-08-30 16:02:58.769][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:58.770][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:58.772][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.TRACE[2025-08-30 16:02:59.157][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393).
biodb.DEBUG[2025-08-30 16:02:59.542][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:02:59.545][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.content"
biodb.TRACE[2025-08-30 16:02:59.549][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.request"
biodb.TRACE[2025-08-30 16:02:59.553][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160393.xml"
biodb.DEBUG[2025-08-30 16:02:59.555][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:02:59.557][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:02:59.558][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:02:59.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:59.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:59.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:59.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:59.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:59.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:59.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:02:59.576][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.577][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.580][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.586][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:59.588][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:59.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.590][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.592][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:02:59.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:02:59.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.598][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:59.599][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:59.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.602][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:02:59.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:02:59.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.609][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:59.610][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:59.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:02:59.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:02:59.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.619][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:59.621][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:59.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.623][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:02:59.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:02:59.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.630][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:59.631][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:02:59.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.635][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:59.636][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:59.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.640][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:02:59.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:59.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.645][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:59.647][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:59.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:59.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:02:59.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.656][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:59.657][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:59.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:02:59.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:02:59.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.667][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:59.668][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:59.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.672][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:02:59.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:02:59.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.677][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:59.678][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:59.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.681][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.682][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:02:59.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:02:59.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:59.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:59.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:59.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:59.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:02:59.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:02:59.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:02:59.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:02:59.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:59.739][self$createEntryFromContent] Accession numbers: 160393.
biodb.TRACE[2025-08-30 16:02:59.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:59.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:59.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:59.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:59.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:02:59.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:59.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:02:59.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:02:59.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:02:59.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:59.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:59.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:59.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:59.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:59.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:59.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:59.769][private$loadEntries] Creating entries from ids [1]: "160991".
biodb.DEBUG[2025-08-30 16:02:59.771][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:02:59.773][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160991".
biodb.TRACE[2025-08-30 16:02:59.774][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:02:59.784][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:02:59.786][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:02:59.787][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:02:59.789][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:02:59.790][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:02:59.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:02:59.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:02:59.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:02:59.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:02:59.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:02:59.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:02:59.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:02:59.807][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.DEBUG[2025-08-30 16:02:59.811][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:02:59.812][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:02:59.814][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.TRACE[2025-08-30 16:03:00.190][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991).
biodb.DEBUG[2025-08-30 16:03:00.574][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:00.577][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.content"
biodb.TRACE[2025-08-30 16:03:00.582][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.request"
biodb.TRACE[2025-08-30 16:03:00.586][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160991.xml"
biodb.DEBUG[2025-08-30 16:03:00.589][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:00.590][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:00.592][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:00.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:00.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:00.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:00.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:00.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:00.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:00.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:00.609][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.611][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.620][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:00.621][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:00.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.623][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.625][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:00.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:00.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.630][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:00.631][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:00.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.635][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:00.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:00.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.641][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:00.642][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:00.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.646][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:00.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.651][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:00.652][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:00.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.656][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:00.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:00.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.662][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:00.664][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:00.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.667][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:00.669][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.673][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:00.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.678][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:00.679][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:00.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.681][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:00.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:00.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.691][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:00.692][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:00.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:00.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:00.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.701][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:00.703][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:00.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.711][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:00.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:00.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.716][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:00.718][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:00.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.722][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:00.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:00.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:00.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:00.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:00.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:00.777][self$createEntryFromContent] Accession numbers: 160991.
biodb.TRACE[2025-08-30 16:03:00.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:00.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:00.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:00.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:00.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:00.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:00.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:00.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:00.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:00.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:00.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:00.807][private$loadEntries] Creating entries from ids [1]: "164975".
biodb.DEBUG[2025-08-30 16:03:00.808][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:00.811][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164975".
biodb.TRACE[2025-08-30 16:03:00.812][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:00.814][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:00.815][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:00.816][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:00.818][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:00.819][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:00.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:00.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:00.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:00.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:00.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:00.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:00.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:00.836][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.DEBUG[2025-08-30 16:03:00.839][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:00.840][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:00.842][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.TRACE[2025-08-30 16:03:01.214][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975).
biodb.DEBUG[2025-08-30 16:03:01.588][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:01.590][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.content"
biodb.TRACE[2025-08-30 16:03:01.595][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.request"
biodb.TRACE[2025-08-30 16:03:01.598][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164975.xml"
biodb.DEBUG[2025-08-30 16:03:01.600][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:01.601][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:01.603][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:01.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:01.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:01.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:01.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:01.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:01.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:01.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:01.619][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.620][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.623][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.629][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:01.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:01.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.634][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:01.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:01.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.639][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:01.641][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:01.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:01.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:01.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.650][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:01.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:01.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:01.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:01.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:01.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:01.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:01.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:01.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.670][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:01.672][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:01.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.676][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:01.677][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.681][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:01.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.686][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:01.687][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:01.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:01.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:01.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.696][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:01.697][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:01.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:01.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:01.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.706][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:01.708][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:01.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.711][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:01.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:01.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.716][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:01.718][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:01.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.722][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:01.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:01.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:01.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:01.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:01.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:01.787][self$createEntryFromContent] Accession numbers: 164975.
biodb.TRACE[2025-08-30 16:03:01.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:01.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:01.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:01.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:01.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:01.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:01.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:01.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:01.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:01.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:01.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:01.816][private$loadEntries] Creating entries from ids [1]: "164994".
biodb.DEBUG[2025-08-30 16:03:01.817][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:01.819][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164994".
biodb.TRACE[2025-08-30 16:03:01.821][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:01.822][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:01.823][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:01.824][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:01.826][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:01.827][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:01.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:01.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:01.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:01.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:01.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:01.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:01.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:01.843][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.DEBUG[2025-08-30 16:03:01.846][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:01.847][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:01.849][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.TRACE[2025-08-30 16:03:02.232][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994).
biodb.DEBUG[2025-08-30 16:03:02.605][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:02.636][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.content"
biodb.TRACE[2025-08-30 16:03:02.641][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.request"
biodb.TRACE[2025-08-30 16:03:02.644][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164994.xml"
biodb.DEBUG[2025-08-30 16:03:02.646][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:02.648][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:02.649][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:02.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:02.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:02.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:02.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:02.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:02.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:02.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:02.667][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.668][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.678][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:02.679][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:02.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.682][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.683][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:02.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:02.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.688][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:02.690][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:02.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.692][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:02.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:02.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.699][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:02.701][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:02.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:02.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:02.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:02.712][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:02.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:02.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:02.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.721][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:02.723][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:02.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.727][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:02.728][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.732][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:02.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.737][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:02.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:02.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:02.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:02.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.748][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:02.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:02.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:02.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:02.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.759][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:02.761][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:02.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.767][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:02.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:02.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.772][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:02.774][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:02.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.778][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:02.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:02.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:02.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:02.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:02.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:02.834][self$createEntryFromContent] Accession numbers: 164994.
biodb.TRACE[2025-08-30 16:03:02.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:02.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:02.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:02.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:02.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:02.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:02.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:02.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:02.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:02.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:02.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:02.863][private$loadEntries] Creating entries from ids [1]: "169251".
biodb.DEBUG[2025-08-30 16:03:02.864][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:02.866][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169251".
biodb.TRACE[2025-08-30 16:03:02.868][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:02.869][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:02.870][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:02.872][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:02.874][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:02.875][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:02.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:02.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:02.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:02.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:02.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:02.890][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:02.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:02.893][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.DEBUG[2025-08-30 16:03:02.897][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:02.898][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:02.900][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.TRACE[2025-08-30 16:03:03.282][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251).
biodb.DEBUG[2025-08-30 16:03:03.663][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:03.665][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.content"
biodb.TRACE[2025-08-30 16:03:03.670][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.request"
biodb.TRACE[2025-08-30 16:03:03.673][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169251.xml"
biodb.DEBUG[2025-08-30 16:03:03.675][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:03.676][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:03.678][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:03.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:03.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:03.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:03.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:03.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:03.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:03.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:03.694][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.696][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.698][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.704][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:03.706][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:03.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.709][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:03.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:03.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.714][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:03.716][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:03.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:03.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:03.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.725][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:03.726][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:03.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:03.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:03.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.745][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:03.746][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:03.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:03.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:03.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.755][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:03.756][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:03.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.760][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:03.761][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.765][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:03.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.770][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:03.771][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:03.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:03.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:03.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.780][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:03.781][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:03.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.783][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:03.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:03.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.790][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:03.791][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:03.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.795][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:03.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:03.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.800][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:03.801][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:03.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.805][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:03.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:03.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:03.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:03.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:03.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:03.859][self$createEntryFromContent] Accession numbers: 169251.
biodb.TRACE[2025-08-30 16:03:03.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:03.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:03.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:03.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:03.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:03.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:03.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:03.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:03.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:03.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:03.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:03.888][private$loadEntries] Creating entries from ids [1]: "224261".
biodb.DEBUG[2025-08-30 16:03:03.889][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:03.891][cch$loadFileContent] Trying to load 1 files from cache: [1]: "224261".
biodb.TRACE[2025-08-30 16:03:03.893][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:03.894][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:03.895][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:03.897][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:03.898][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:03.899][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:03.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:03.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:03.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:03.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:03.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:03.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:03.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:03.916][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.DEBUG[2025-08-30 16:03:03.920][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:03.921][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:03.923][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.TRACE[2025-08-30 16:03:04.297][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261).
biodb.DEBUG[2025-08-30 16:03:04.695][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:04.698][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.content"
biodb.TRACE[2025-08-30 16:03:04.702][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.request"
biodb.TRACE[2025-08-30 16:03:04.705][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/224261.xml"
biodb.DEBUG[2025-08-30 16:03:04.707][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:04.709][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:04.710][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:04.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:04.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:04.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:04.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:04.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:04.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:04.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:04.726][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.728][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.736][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:04.738][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:04.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.741][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:04.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:04.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.746][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:04.748][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:04.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.752][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:04.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:04.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.757][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:04.758][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:04.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:04.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:04.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.767][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:04.768][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:04.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:04.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:04.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.777][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:04.778][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:04.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.780][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.782][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:04.783][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.787][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:04.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.792][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:04.793][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:04.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:04.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:04.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.802][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:04.803][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:04.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.807][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:04.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:04.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.812][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:04.813][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:04.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.817][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:04.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:04.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.822][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:04.823][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:04.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.827][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:04.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:04.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:04.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:04.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:04.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:04.881][self$createEntryFromContent] Accession numbers: 224261.
biodb.TRACE[2025-08-30 16:03:04.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:04.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:04.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:04.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:04.897][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:04.901][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:04.903][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:04.905][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:05.290][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:05.674][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:05.677][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content"
biodb.TRACE[2025-08-30 16:03:05.682][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.request"
biodb.DEBUG[2025-08-30 16:03:05.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:05.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:05.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:05.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:05.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:05.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:05.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:05.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:05.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:05.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:05.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:05.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:05.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:05.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:05.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:05.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:05.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:05.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:05.741][private$loadEntries] Creating entries from ids [1]: "71954".
biodb.DEBUG[2025-08-30 16:03:05.743][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:05.745][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71954".
biodb.TRACE[2025-08-30 16:03:05.746][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:05.747][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:05.749][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:05.750][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:05.751][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:05.753][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:05.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:05.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:05.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:05.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:05.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:05.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:05.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:05.769][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.DEBUG[2025-08-30 16:03:05.773][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:05.774][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:05.776][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.TRACE[2025-08-30 16:03:06.166][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954).
biodb.DEBUG[2025-08-30 16:03:06.550][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:06.553][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.content"
biodb.TRACE[2025-08-30 16:03:06.557][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.request"
biodb.TRACE[2025-08-30 16:03:06.560][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71954.xml"
biodb.DEBUG[2025-08-30 16:03:06.562][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:06.564][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:06.565][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:06.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:06.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:06.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:06.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:06.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:06.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:06.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:06.583][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.584][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.593][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:06.594][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:06.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.597][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:06.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:06.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.603][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:06.605][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:06.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:06.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:06.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.614][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:06.615][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:06.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.619][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:06.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:06.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.625][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:06.626][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:06.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:06.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:06.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.635][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:06.636][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:06.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.640][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:06.642][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.646][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:06.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.651][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:06.652][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:06.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:06.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:06.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.661][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:06.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:06.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:06.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:06.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.672][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:06.673][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:06.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.677][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:06.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:06.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.682][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:06.684][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:06.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.688][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:06.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:06.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:06.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:06.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:06.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:06.745][self$createEntryFromContent] Accession numbers: 71954.
biodb.TRACE[2025-08-30 16:03:06.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:06.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:06.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:06.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:06.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:06.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:06.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:06.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:06.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:06.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:06.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:06.775][private$loadEntries] Creating entries from ids [1]: "197612".
biodb.DEBUG[2025-08-30 16:03:06.776][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:06.778][cch$loadFileContent] Trying to load 1 files from cache: [1]: "197612".
biodb.TRACE[2025-08-30 16:03:06.779][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:06.781][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:06.782][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:06.783][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:06.784][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:06.786][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:06.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:06.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:06.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:06.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:06.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:06.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:06.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:06.802][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.DEBUG[2025-08-30 16:03:06.806][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:06.807][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:06.809][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.TRACE[2025-08-30 16:03:07.185][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612).
biodb.DEBUG[2025-08-30 16:03:07.565][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:07.568][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.content"
biodb.TRACE[2025-08-30 16:03:07.572][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.request"
biodb.TRACE[2025-08-30 16:03:07.576][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/197612.xml"
biodb.DEBUG[2025-08-30 16:03:07.578][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:07.580][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:07.581][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:07.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:07.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:07.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:07.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:07.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:07.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:07.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:07.599][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.601][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.610][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:07.612][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:07.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.616][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:07.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:07.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.621][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:07.623][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:07.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.625][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:07.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:07.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.632][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:07.634][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:07.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.636][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:07.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:07.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.643][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:07.645][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:07.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:07.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:07.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:07.656][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:07.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.660][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:07.662][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:07.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.666][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:07.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:07.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.671][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:07.673][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:07.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:07.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:07.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.683][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:07.684][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:07.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:07.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:07.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.707][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:07.708][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:07.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.712][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:07.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:07.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.718][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:07.719][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:07.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.723][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:07.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:07.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:07.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:07.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:07.778][self$createEntryFromContent] Accession numbers: 197612.
biodb.TRACE[2025-08-30 16:03:07.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:07.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:07.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:07.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:07.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:07.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:07.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:07.795][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:07.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:07.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:07.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:07.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:07.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:07.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:07.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:07.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.827][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:07.828][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:07.829][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:07.830][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.832][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.833][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.835][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.837][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.838][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.842][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.843][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.844][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.849][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:07.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.866][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:07.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:07.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:07.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:07.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:07.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:07.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:07.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:07.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.892][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.893][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:07.895][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:07.896][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:07.897][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.900][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.902][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.905][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.911][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.918][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:07.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.935][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:03:07.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:07.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:07.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:07.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:07.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:07.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:07.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:07.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.959][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.961][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:07.962][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:07.963][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:07.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.967][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.970][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.972][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.975][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.976][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:07.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.983][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:07.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:07.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:07.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:07.999][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:03:08.001][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:08.002][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:03:08.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:08.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:08.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:08.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:08.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:08.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:08.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:08.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:08.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:08.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:08.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:08.176][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:08.180][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:08.182][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:08.184][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:08.559][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:08.940][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:08.942][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2025-08-30 16:03:08.947][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2025-08-30 16:03:08.952][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:08.956][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:08.957][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:08.960][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:09.337][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:09.710][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:09.713][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2025-08-30 16:03:09.718][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2025-08-30 16:03:09.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:09.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:09.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:09.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:09.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:09.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:09.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:09.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:09.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:09.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:09.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:09.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:09.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:09.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:09.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:09.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:09.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:09.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:09.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:09.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:09.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:09.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:09.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:09.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:09.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:09.807][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:09.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:09.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:09.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:09.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:09.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:09.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:09.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:09.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:09.833][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:09.834][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:09.835][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:09.837][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:09.838][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.839][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.848][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:09.849][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:09.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.855][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:09.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.873][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:03:09.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:09.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:09.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:09.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:09.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:09.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:09.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:09.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.942][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:09.943][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:09.945][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:09.946][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:09.948][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:09.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.950][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.953][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.954][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.955][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.958][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.959][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:09.973][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:09.975][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.980][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:09.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:09.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:09.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:09.996][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:09.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:09.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:10.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:10.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:10.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:10.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:10.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.020][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:10.022][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:10.023][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:10.024][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:10.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:10.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.028][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.030][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.033][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.035][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:10.038][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:10.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.044][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:10.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:10.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.060][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:03:10.061][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:10.063][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:10.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:10.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:10.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:10.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:10.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:10.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:10.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:10.091][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:10.095][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:10.096][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:10.099][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:10.472][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:10.846][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:10.848][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content"
biodb.TRACE[2025-08-30 16:03:10.853][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.request"
biodb.DEBUG[2025-08-30 16:03:10.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:10.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:10.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:10.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:10.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:10.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:10.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:10.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:10.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:10.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:10.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:10.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:10.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:10.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:10.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:10.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:10.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:10.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:10.899][private$loadEntries] Creating entries from ids [1]: "91601".
biodb.DEBUG[2025-08-30 16:03:10.900][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:10.902][cch$loadFileContent] Trying to load 1 files from cache: [1]: "91601".
biodb.TRACE[2025-08-30 16:03:10.903][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:10.905][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:10.906][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:10.907][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:10.909][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:10.910][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:10.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:10.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:10.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:10.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:10.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:10.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:10.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:10.926][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.DEBUG[2025-08-30 16:03:10.930][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:10.931][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:10.933][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.TRACE[2025-08-30 16:03:11.309][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601).
biodb.DEBUG[2025-08-30 16:03:11.682][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:11.685][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.content"
biodb.TRACE[2025-08-30 16:03:11.689][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.request"
biodb.TRACE[2025-08-30 16:03:11.694][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91601.xml"
biodb.DEBUG[2025-08-30 16:03:11.696][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:11.698][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:11.699][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:11.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:11.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:11.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:11.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:11.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:11.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:11.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:11.716][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.717][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.726][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:11.728][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:11.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.732][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:11.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:11.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.737][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:11.738][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:11.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.743][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:11.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:11.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.748][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:11.749][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:11.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:11.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:11.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.758][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:11.759][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:11.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:11.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:11.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.768][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:11.769][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:11.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.773][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:11.774][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.778][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:11.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:11.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.783][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.784][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.795][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:11.796][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:11.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:11.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:11.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.805][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:11.807][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:11.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.812][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:11.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:11.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.817][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:11.818][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:11.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.822][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:11.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:11.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:11.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:11.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:11.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:11.882][self$createEntryFromContent] Accession numbers: 91601.
biodb.TRACE[2025-08-30 16:03:11.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:11.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:11.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:11.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:11.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:11.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:11.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:11.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:11.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:11.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:11.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:11.911][private$loadEntries] Creating entries from ids [1]: "95147".
biodb.DEBUG[2025-08-30 16:03:11.912][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:11.914][cch$loadFileContent] Trying to load 1 files from cache: [1]: "95147".
biodb.TRACE[2025-08-30 16:03:11.916][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:11.917][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:11.918][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:11.920][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:11.921][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:11.922][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:11.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:11.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:11.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:11.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:11.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:11.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:11.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:11.938][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.DEBUG[2025-08-30 16:03:11.942][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:11.943][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:11.945][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.TRACE[2025-08-30 16:03:12.317][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147).
biodb.DEBUG[2025-08-30 16:03:12.694][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:12.697][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.content"
biodb.TRACE[2025-08-30 16:03:12.701][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.request"
biodb.TRACE[2025-08-30 16:03:12.704][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/95147.xml"
biodb.DEBUG[2025-08-30 16:03:12.706][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:12.708][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:12.709][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:12.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.726][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.727][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.736][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:12.738][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:12.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.741][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:12.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:12.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.746][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:12.748][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:12.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.750][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.752][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:12.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:12.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.757][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:12.758][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:12.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:12.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:12.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.782][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:12.783][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:12.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:12.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:12.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.792][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:12.793][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:12.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.797][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:12.799][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.803][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:12.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:12.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.808][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.809][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.818][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:12.820][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:12.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.824][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:12.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:12.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.829][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:12.830][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:12.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.834][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:12.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:12.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.839][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:12.840][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:12.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.844][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:12.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:12.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:12.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:12.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.900][self$createEntryFromContent] Accession numbers: 95147.
biodb.TRACE[2025-08-30 16:03:12.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:12.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:12.916][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:12.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:12.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:12.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:12.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:12.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:12.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.952][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.954][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:12.955][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:12.956][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:12.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.960][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.963][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.969][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.970][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:12.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.975][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.976][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:12.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:12.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:12.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:12.993][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:12.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:12.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:12.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.019][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:13.021][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:13.022][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:13.023][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.029][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.034][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.035][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.042][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:13.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.058][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:03:13.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:13.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.087][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.089][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:13.090][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:13.091][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:13.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.105][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:13.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.110][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.111][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:13.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:13.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:13.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:13.129][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:03:13.130][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:13.131][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:13.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:13.150][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:13.154][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:13.155][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:13.158][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:13.534][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:13.913][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:13.915][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content"
biodb.TRACE[2025-08-30 16:03:13.920][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.request"
biodb.DEBUG[2025-08-30 16:03:13.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:13.937][private$loadEntries] Creating entries from ids [1]: "636".
biodb.DEBUG[2025-08-30 16:03:13.939][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:13.941][cch$loadFileContent] Trying to load 1 files from cache: [1]: "636".
biodb.TRACE[2025-08-30 16:03:13.942][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:13.943][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:13.945][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:13.946][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:13.947][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:13.948][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:13.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:13.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:13.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:13.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:13.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:13.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:13.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:13.965][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.DEBUG[2025-08-30 16:03:13.976][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:13.977][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:13.979][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.TRACE[2025-08-30 16:03:14.351][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636).
biodb.DEBUG[2025-08-30 16:03:14.732][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:14.735][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.content"
biodb.TRACE[2025-08-30 16:03:14.739][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.request"
biodb.TRACE[2025-08-30 16:03:14.743][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/636.xml"
biodb.DEBUG[2025-08-30 16:03:14.745][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:14.746][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:14.747][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:14.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:14.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:14.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:14.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:14.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:14.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:14.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:14.764][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.774][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:14.775][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:14.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.779][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:14.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:14.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.785][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:14.786][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:14.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:14.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:14.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.795][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:14.796][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:14.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:14.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:14.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.806][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:14.807][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:14.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:14.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:14.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.816][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:14.817][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:14.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.821][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:14.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:14.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.826][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:14.828][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:14.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:14.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.837][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.838][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.847][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:14.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:14.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:14.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:14.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.858][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:14.860][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:14.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.864][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:14.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:14.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.869][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:14.870][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:14.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.874][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:14.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:14.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:14.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:14.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:14.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:14.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:14.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:14.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:14.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:14.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:14.931][self$createEntryFromContent] Accession numbers: 636.
biodb.TRACE[2025-08-30 16:03:14.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:14.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:14.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:14.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:14.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:14.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:14.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:14.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:14.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:14.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:14.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:14.963][private$loadEntries] Creating entries from ids [1]: "64199".
biodb.DEBUG[2025-08-30 16:03:14.965][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:14.967][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64199".
biodb.TRACE[2025-08-30 16:03:14.969][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:14.970][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:14.971][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:14.973][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:14.974][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:14.975][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:14.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:14.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:14.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:14.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:14.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:14.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:14.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:14.992][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.DEBUG[2025-08-30 16:03:14.996][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:14.997][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:14.999][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.TRACE[2025-08-30 16:03:15.371][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199).
biodb.DEBUG[2025-08-30 16:03:15.750][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:15.753][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.content"
biodb.TRACE[2025-08-30 16:03:15.758][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.request"
biodb.TRACE[2025-08-30 16:03:15.762][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64199.xml"
biodb.DEBUG[2025-08-30 16:03:15.764][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:15.765][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:15.767][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:15.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:15.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:15.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:15.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:15.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:15.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:15.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:15.784][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.785][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.794][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:15.795][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:15.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.800][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:15.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:15.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.805][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:15.806][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:15.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.810][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:15.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:15.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.815][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:15.817][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:15.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:15.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:15.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.826][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:15.827][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:15.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:15.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:15.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.836][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:15.837][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:15.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.841][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:15.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.846][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:15.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:15.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.851][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.853][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.862][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:15.863][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:15.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:15.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:15.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.872][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:15.874][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:15.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.878][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:15.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:15.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.883][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:15.884][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:15.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.888][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:15.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:15.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:15.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:15.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:15.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:15.956][self$createEntryFromContent] Accession numbers: 64199.
biodb.TRACE[2025-08-30 16:03:15.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:15.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:15.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:15.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:15.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:15.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:15.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:15.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:15.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:15.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:15.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:15.985][private$loadEntries] Creating entries from ids [1]: "65648".
biodb.DEBUG[2025-08-30 16:03:15.986][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:15.988][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65648".
biodb.TRACE[2025-08-30 16:03:15.991][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:15.992][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:15.993][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:15.995][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:15.996][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:15.997][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:16.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:16.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:16.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:16.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:16.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:16.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:16.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:16.014][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.DEBUG[2025-08-30 16:03:16.017][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:16.019][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:16.020][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.TRACE[2025-08-30 16:03:16.395][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648).
biodb.DEBUG[2025-08-30 16:03:16.774][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:16.776][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.content"
biodb.TRACE[2025-08-30 16:03:16.780][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.request"
biodb.TRACE[2025-08-30 16:03:16.784][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65648.xml"
biodb.DEBUG[2025-08-30 16:03:16.786][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:16.787][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:16.788][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:16.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:16.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:16.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:16.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:16.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:16.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:16.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:16.805][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.806][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.815][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:16.817][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:16.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.821][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:16.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:16.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.826][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:16.827][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:16.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.832][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:16.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:16.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.837][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:16.838][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:16.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:16.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:16.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:16.849][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:16.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:16.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:16.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.858][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:16.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:16.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.863][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:16.864][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.868][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:16.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:16.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.873][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.875][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.885][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:16.887][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:16.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.889][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:16.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:16.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.896][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:16.897][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:16.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.901][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:16.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:16.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.907][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:16.908][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:16.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.912][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:16.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:16.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:16.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:16.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:16.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:16.968][self$createEntryFromContent] Accession numbers: 65648.
biodb.TRACE[2025-08-30 16:03:16.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:16.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:16.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:16.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:16.985][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:16.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:16.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:16.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:16.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:16.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:16.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:16.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.012][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.013][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.014][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.015][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.017][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.018][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.019][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.022][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.023][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.028][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.030][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.036][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.052][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:03:17.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.080][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.081][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.082][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.083][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.085][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.086][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.090][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.091][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.095][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.096][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.098][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.102][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.119][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:03:17.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.154][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.155][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.156][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.157][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.158][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.161][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.170][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.171][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.177][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.193][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2025-08-30 16:03:17.195][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:17.196][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:03:17.206][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:17.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:17.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.212][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:17.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:17.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.217][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:17.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:17.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:03:17.227][biodb::testThat]
biodb.INFO [2025-08-30 16:03:17.228][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-30 16:03:17.229][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:03:17.231][biodb::testThat]
biodb.TRACE[2025-08-30 16:03:17.234][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:17.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:17.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.239][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:17.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:17.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.244][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:17.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:17.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:17.329][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:17.334][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:17.336][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:03:17.337][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:17.339][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:03:17.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.371][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:17.375][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:17.377][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:03:17.378][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:17.380][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:03:17.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.440][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:17.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.503][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.505][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.506][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.507][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.508][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.509][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.515][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.516][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.520][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.521][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.528][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.545][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:03:17.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.572][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.573][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.574][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.576][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.577][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.578][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.579][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.582][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.583][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.584][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.587][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.588][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.590][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.591][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.594][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.596][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.615][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:17.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.646][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.647][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.648][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.649][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.652][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.656][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.662][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.664][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.665][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.669][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.686][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:03:17.688][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:17.689][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:17.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:17.707][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:17.712][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:17.713][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:03:17.715][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:17.717][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:03:17.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.779][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:17.783][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:17.785][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:03:17.786][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:17.788][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:03:17.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:17.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:17.879][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:17.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.906][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.907][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.908][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.909][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.917][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.918][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.922][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.923][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.925][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.927][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.930][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.947][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:17.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:17.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:17.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:17.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:17.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:17.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:17.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:17.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.973][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.975][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:17.976][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:17.977][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:17.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.984][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.986][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.989][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.991][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:17.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:17.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:17.997][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:17.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:17.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.014][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:18.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.041][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.042][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:18.043][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:18.044][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:18.045][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.047][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.048][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.058][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:18.059][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.060][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.064][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:18.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:18.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.088][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:03:18.091][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:18.092][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:18.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:18.111][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:18.116][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:18.117][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:03:18.119][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:18.121][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:03:18.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:18.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:18.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:18.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:18.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:18.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:18.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:18.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:18.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:18.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:18.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:18.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:18.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:18.212][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:18.216][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:18.217][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:18.220][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:18.603][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:19.071][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:19.074][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.content"
biodb.TRACE[2025-08-30 16:03:19.079][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.request"
biodb.DEBUG[2025-08-30 16:03:19.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:19.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:19.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:19.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:19.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:19.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:19.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:19.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:19.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:19.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:19.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:19.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:19.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:19.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:19.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:19.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:19.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:19.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:19.131][private$loadEntries] Creating entries from ids [1]: "3017".
biodb.DEBUG[2025-08-30 16:03:19.133][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:19.135][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3017".
biodb.TRACE[2025-08-30 16:03:19.136][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:19.137][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:19.139][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:19.140][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:19.141][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:19.142][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:19.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:19.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:19.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:19.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:19.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:19.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:19.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:19.159][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.DEBUG[2025-08-30 16:03:19.162][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:19.164][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:19.165][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.TRACE[2025-08-30 16:03:19.538][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017).
biodb.DEBUG[2025-08-30 16:03:19.924][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:19.927][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.content"
biodb.TRACE[2025-08-30 16:03:19.948][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.request"
biodb.TRACE[2025-08-30 16:03:19.951][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3017.xml"
biodb.DEBUG[2025-08-30 16:03:19.953][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:19.955][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:19.956][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:19.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:19.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:19.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:19.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:19.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:19.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:19.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:19.973][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:19.975][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:19.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:19.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:19.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:19.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:19.984][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:19.985][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:19.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:19.990][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:19.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:19.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:19.995][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:19.996][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:19.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:19.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.001][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:20.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:20.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.006][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:20.008][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:20.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:20.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:20.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.017][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:20.019][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:20.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.023][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:20.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:20.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.028][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:20.030][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:20.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.034][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:20.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:20.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.041][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:20.043][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.045][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.047][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:20.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.052][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:20.053][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:20.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:20.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.062][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:20.064][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:20.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.068][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:20.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:20.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.073][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:20.075][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:20.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.079][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:20.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:20.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.084][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:20.086][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:20.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:20.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:20.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:20.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:20.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:20.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:20.148][self$createEntryFromContent] Accession numbers: 3017.
biodb.TRACE[2025-08-30 16:03:20.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:20.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:20.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:20.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:20.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:20.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:20.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:20.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:20.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:20.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:20.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:20.191][private$loadEntries] Creating entries from ids [1]: "3510".
biodb.DEBUG[2025-08-30 16:03:20.192][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:20.194][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3510".
biodb.TRACE[2025-08-30 16:03:20.196][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:20.197][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:20.199][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:20.200][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:20.201][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:20.202][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:20.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:20.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:20.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:20.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:20.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:20.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:20.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:20.219][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.DEBUG[2025-08-30 16:03:20.222][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:20.224][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:20.225][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.TRACE[2025-08-30 16:03:20.598][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510).
biodb.DEBUG[2025-08-30 16:03:20.978][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:20.981][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.content"
biodb.TRACE[2025-08-30 16:03:20.986][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.request"
biodb.TRACE[2025-08-30 16:03:20.990][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3510.xml"
biodb.DEBUG[2025-08-30 16:03:20.992][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:20.994][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:20.996][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:20.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:20.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:21.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:21.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:21.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:21.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:21.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:21.014][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.016][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.025][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:21.026][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:21.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.031][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:21.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:21.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.036][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:21.037][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:21.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.041][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:21.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:21.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.047][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:21.048][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:21.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:21.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:21.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.057][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:21.058][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:21.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.061][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:21.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:21.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.067][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:21.069][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:21.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.073][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:21.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:21.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.078][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:21.079][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.082][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.084][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:21.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:21.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:21.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:21.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:21.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.100][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:21.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:21.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.105][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:21.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:21.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.110][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:21.112][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:21.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:21.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:21.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.121][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:21.122][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:21.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.126][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:21.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:21.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:21.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:21.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:21.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:21.184][self$createEntryFromContent] Accession numbers: 3510.
biodb.TRACE[2025-08-30 16:03:21.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:21.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:21.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:21.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:21.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:21.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:21.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:21.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:21.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:21.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:21.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:21.215][private$loadEntries] Creating entries from ids [1]: "7554".
biodb.DEBUG[2025-08-30 16:03:21.217][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:21.219][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7554".
biodb.TRACE[2025-08-30 16:03:21.220][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:21.222][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:21.224][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:21.225][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:21.226][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:21.228][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:21.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:21.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:21.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:21.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:21.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:21.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:21.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:21.246][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.DEBUG[2025-08-30 16:03:21.250][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:21.251][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:21.253][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.TRACE[2025-08-30 16:03:21.626][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554).
biodb.DEBUG[2025-08-30 16:03:22.006][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:22.008][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.content"
biodb.TRACE[2025-08-30 16:03:22.013][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.request"
biodb.TRACE[2025-08-30 16:03:22.017][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7554.xml"
biodb.DEBUG[2025-08-30 16:03:22.019][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:22.021][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:22.023][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:22.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.040][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.041][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.043][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.050][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:22.051][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:22.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.055][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:22.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:22.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.060][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:22.062][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:22.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.066][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:22.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:22.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.071][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:22.072][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:22.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.075][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:22.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:22.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.081][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:22.083][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:22.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:22.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:22.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.092][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:22.094][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:22.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.098][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:22.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:22.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.103][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:22.104][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.108][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:22.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.114][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.115][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.117][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.124][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:22.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:22.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:22.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:22.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.147][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:22.148][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:22.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.152][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:22.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:22.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.157][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:22.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:22.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:22.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:22.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:22.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:22.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.218][self$createEntryFromContent] Accession numbers: 7554.
biodb.TRACE[2025-08-30 16:03:22.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:22.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.234][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:22.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.259][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.261][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:22.262][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:22.263][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:22.264][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.267][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.275][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.276][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.278][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.283][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:22.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.300][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:22.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.325][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.327][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:22.328][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:22.329][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:22.330][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.331][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.341][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.343][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.344][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.346][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.349][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:22.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.367][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3017].
biodb.DEBUG[2025-08-30 16:03:22.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.393][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:22.394][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:22.396][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:22.397][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.398][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.399][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.403][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.404][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.408][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.409][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.411][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.412][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.415][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:22.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.434][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7554].
biodb.DEBUG[2025-08-30 16:03:22.435][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:22.436][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:03:22.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:22.569][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:22.574][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:22.576][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:03:22.577][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:22.579][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:03:22.583][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:22.588][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:22.590][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:03:22.591][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:22.593][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:03:22.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:22.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:22.692][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:22.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.719][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.720][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:22.722][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:22.723][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:22.724][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.730][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.732][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.737][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.738][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.739][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.743][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:22.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.759][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:03:22.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.785][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:22.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:22.787][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:22.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.801][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.807][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:22.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.824][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:22.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:22.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.850][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:22.851][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:22.853][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:22.854][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.867][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:22.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.870][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.874][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:22.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:22.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:22.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:22.891][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:03:22.892][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:22.894][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:22.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:22.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:22.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:22.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:22.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:22.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:22.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:22.912][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:22.917][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:22.918][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:22.920][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:23.295][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:23.675][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:23.679][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.content"
biodb.TRACE[2025-08-30 16:03:23.684][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.request"
biodb.DEBUG[2025-08-30 16:03:23.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:23.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:23.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:23.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:23.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:23.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:23.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:23.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:23.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:23.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:23.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:23.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:23.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:23.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:23.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:23.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:23.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:23.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:23.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:23.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:23.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:23.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:23.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:23.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:23.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:23.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:23.853][private$loadEntries] Creating entries from ids [1]: "27495".
biodb.DEBUG[2025-08-30 16:03:23.854][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:23.856][cch$loadFileContent] Trying to load 1 files from cache: [1]: "27495".
biodb.TRACE[2025-08-30 16:03:23.858][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:23.859][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:23.860][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:23.862][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:23.863][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:23.864][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:23.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:23.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:23.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:23.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:23.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:23.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:23.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:23.881][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.DEBUG[2025-08-30 16:03:23.885][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:23.886][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:23.888][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.TRACE[2025-08-30 16:03:24.261][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495).
biodb.DEBUG[2025-08-30 16:03:24.640][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:24.642][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.content"
biodb.TRACE[2025-08-30 16:03:24.649][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.request"
biodb.TRACE[2025-08-30 16:03:24.652][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/27495.xml"
biodb.DEBUG[2025-08-30 16:03:24.654][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:24.656][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:24.657][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:24.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:24.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:24.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:24.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:24.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:24.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:24.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:24.687][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.692][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.699][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:24.700][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:24.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.702][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.704][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:24.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:24.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.709][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:24.711][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:24.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.715][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:24.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:24.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.720][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:24.721][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:24.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:24.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:24.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.769][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:24.770][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:24.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:24.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:24.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:24.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:24.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.786][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:24.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:24.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.792][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:24.793][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.797][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:24.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:24.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.804][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.813][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:24.814][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:24.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:24.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:24.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.825][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:24.826][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:24.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.828][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.830][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:24.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:24.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.835][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:24.837][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:24.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:24.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:24.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:24.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:24.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:24.902][self$createEntryFromContent] Accession numbers: 27495.
biodb.TRACE[2025-08-30 16:03:24.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:24.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:24.921][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:24.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:24.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:24.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:24.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:24.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:24.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:24.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:24.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.951][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:24.952][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:24.953][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:24.955][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:24.956][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:24.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.963][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.968][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.969][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:24.970][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:24.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:24.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:24.975][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:24.977][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:24.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.030][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:25.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:25.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:25.073][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:25.074][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:25.075][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:25.080][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:25.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.083][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.088][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.090][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:25.093][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:25.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.096][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.099][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:25.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.117][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:03:25.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:25.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.143][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:25.145][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:25.146][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:25.147][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:25.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:25.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.154][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.159][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:25.161][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:25.162][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.163][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.166][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.167][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:25.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:25.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.184][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [27495].
biodb.DEBUG[2025-08-30 16:03:25.185][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:25.186][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:25.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:25.204][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:25.208][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:25.210][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:03:25.211][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:25.213][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:03:25.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:25.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:25.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:25.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:25.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:25.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:25.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:25.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:25.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:25.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:25.321][private$loadEntries] Creating entries from ids [1]: "65675".
biodb.DEBUG[2025-08-30 16:03:25.322][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:25.324][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65675".
biodb.TRACE[2025-08-30 16:03:25.325][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:25.327][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:25.328][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:25.330][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:25.332][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:25.333][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:25.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:25.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:25.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:25.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:25.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:25.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:25.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:25.350][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.DEBUG[2025-08-30 16:03:25.354][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:25.355][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:25.357][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.TRACE[2025-08-30 16:03:25.729][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675).
biodb.DEBUG[2025-08-30 16:03:26.109][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:26.111][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.content"
biodb.TRACE[2025-08-30 16:03:26.116][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.request"
biodb.TRACE[2025-08-30 16:03:26.119][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65675.xml"
biodb.DEBUG[2025-08-30 16:03:26.122][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:26.124][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:26.126][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:26.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:26.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:26.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:26.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:26.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:26.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:26.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:26.143][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.144][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.154][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:26.155][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:26.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.159][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:26.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:26.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.165][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:26.166][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:26.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.170][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:26.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:26.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.175][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:26.176][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:26.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:26.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:26.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.186][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.187][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:26.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.196][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:26.198][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:26.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.202][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:26.203][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.207][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:26.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:26.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.212][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.214][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.223][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:26.224][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:26.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:26.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:26.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.234][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:26.235][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:26.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:26.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:26.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.245][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:26.247][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:26.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.251][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:26.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:26.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:26.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:26.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:26.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:26.323][self$createEntryFromContent] Accession numbers: 65675.
biodb.TRACE[2025-08-30 16:03:26.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:26.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:26.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:26.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:26.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:26.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:26.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:26.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:26.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:26.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:26.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:26.364][private$loadEntries] Creating entries from ids [1]: "66318".
biodb.DEBUG[2025-08-30 16:03:26.365][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:26.367][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66318".
biodb.TRACE[2025-08-30 16:03:26.369][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:26.370][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:26.372][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:26.373][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:26.375][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:26.376][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:26.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:26.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:26.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:26.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:26.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:26.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:26.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:26.393][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.DEBUG[2025-08-30 16:03:26.397][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:26.398][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:26.400][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.TRACE[2025-08-30 16:03:26.774][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318).
biodb.DEBUG[2025-08-30 16:03:27.153][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:27.156][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.content"
biodb.TRACE[2025-08-30 16:03:27.160][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.request"
biodb.TRACE[2025-08-30 16:03:27.164][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66318.xml"
biodb.DEBUG[2025-08-30 16:03:27.166][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:27.167][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:27.169][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:27.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:27.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:27.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:27.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:27.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:27.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:27.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:27.185][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.187][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.196][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:27.197][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:27.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.201][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:27.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:27.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.206][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:27.208][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:27.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.210][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:27.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:27.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.228][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:27.230][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:27.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:27.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:27.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.239][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:27.240][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:27.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.243][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:27.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:27.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:27.251][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:27.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.253][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.255][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:27.256][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.260][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:27.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:27.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.265][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.267][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.275][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:27.277][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:27.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:27.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:27.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.287][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:27.288][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:27.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.292][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:27.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:27.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.297][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:27.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:27.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.303][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:27.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:27.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:27.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:27.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:27.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:27.359][self$createEntryFromContent] Accession numbers: 66318.
biodb.TRACE[2025-08-30 16:03:27.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:27.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:27.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:27.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:27.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:27.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:27.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:27.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:27.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:27.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:27.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:27.390][private$loadEntries] Creating entries from ids [1]: "67547".
biodb.DEBUG[2025-08-30 16:03:27.391][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:27.393][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67547".
biodb.TRACE[2025-08-30 16:03:27.395][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:27.396][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:27.398][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:27.399][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:27.400][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:27.402][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:27.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:27.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:27.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:27.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:27.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:27.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:27.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:27.419][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.DEBUG[2025-08-30 16:03:27.422][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:27.423][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:27.425][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.TRACE[2025-08-30 16:03:27.797][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547).
biodb.DEBUG[2025-08-30 16:03:28.189][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:28.192][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.content"
biodb.TRACE[2025-08-30 16:03:28.197][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.request"
biodb.TRACE[2025-08-30 16:03:28.201][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67547.xml"
biodb.DEBUG[2025-08-30 16:03:28.203][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:28.205][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:28.206][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:28.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:28.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:28.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:28.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:28.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:28.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:28.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:28.225][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.226][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.236][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:28.237][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:28.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.240][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.242][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:28.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:28.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.248][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:28.249][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:28.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:28.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:28.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.259][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:28.261][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:28.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:28.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:28.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.273][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:28.274][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:28.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:28.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:28.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.284][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:28.285][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:28.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.289][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:28.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:28.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.294][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:28.296][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.300][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:28.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:28.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.306][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.315][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:28.317][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:28.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.321][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:28.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:28.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.326][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:28.328][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:28.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.332][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:28.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:28.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.337][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:28.338][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:28.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.342][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:28.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:28.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:28.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:28.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:28.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:28.399][self$createEntryFromContent] Accession numbers: 67547.
biodb.TRACE[2025-08-30 16:03:28.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:28.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:28.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:28.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:28.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:28.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:28.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:28.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:28.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:28.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:28.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:28.429][private$loadEntries] Creating entries from ids [1]: "69550".
biodb.DEBUG[2025-08-30 16:03:28.431][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:28.433][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69550".
biodb.TRACE[2025-08-30 16:03:28.434][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:28.436][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:28.437][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:28.444][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:28.449][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:28.451][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:28.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:28.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:28.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:28.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:28.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:28.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:28.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:28.468][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.DEBUG[2025-08-30 16:03:28.472][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:28.473][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:28.475][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.TRACE[2025-08-30 16:03:28.848][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550).
biodb.DEBUG[2025-08-30 16:03:29.224][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:29.227][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.content"
biodb.TRACE[2025-08-30 16:03:29.232][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.request"
biodb.TRACE[2025-08-30 16:03:29.235][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69550.xml"
biodb.DEBUG[2025-08-30 16:03:29.237][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:29.239][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:29.240][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:29.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:29.258][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.262][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.268][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:29.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:29.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.314][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:29.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:29.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.319][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:29.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:29.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.324][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:29.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:29.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.329][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:29.331][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:29.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.333][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:29.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:29.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.339][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:29.341][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:29.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:29.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:29.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.350][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:29.351][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:29.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.353][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.355][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:29.356][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.359][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.360][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:29.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:29.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.368][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.377][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:29.379][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:29.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:29.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:29.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.388][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:29.390][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:29.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.392][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.394][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:29.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:29.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.399][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:29.401][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:29.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:29.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:29.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:29.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:29.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:29.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.462][self$createEntryFromContent] Accession numbers: 69550.
biodb.TRACE[2025-08-30 16:03:29.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:29.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:29.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:29.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:29.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:29.492][private$loadEntries] Creating entries from ids [1]: "71520".
biodb.DEBUG[2025-08-30 16:03:29.494][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:29.496][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71520".
biodb.TRACE[2025-08-30 16:03:29.497][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:29.499][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:29.500][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:29.501][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:29.503][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:29.504][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:29.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:29.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:29.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:29.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:29.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:29.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:29.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:29.522][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.DEBUG[2025-08-30 16:03:29.525][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:29.527][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:29.528][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.TRACE[2025-08-30 16:03:29.903][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520).
biodb.DEBUG[2025-08-30 16:03:30.279][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:30.282][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.content"
biodb.TRACE[2025-08-30 16:03:30.286][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.request"
biodb.TRACE[2025-08-30 16:03:30.290][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71520.xml"
biodb.DEBUG[2025-08-30 16:03:30.292][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:30.293][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:30.295][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:30.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:30.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:30.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:30.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:30.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:30.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:30.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:30.311][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.313][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.322][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:30.323][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:30.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.325][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.327][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:30.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:30.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.332][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:30.333][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:30.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.337][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:30.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:30.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.342][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:30.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:30.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.346][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:30.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:30.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.353][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:30.354][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:30.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:30.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:30.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.363][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:30.364][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:30.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.368][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:30.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.373][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:30.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:30.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.379][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.380][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.382][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.389][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:30.390][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:30.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:30.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:30.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.400][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:30.402][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:30.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:30.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:30.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.411][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:30.412][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:30.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.416][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:30.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:30.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:30.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:30.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:30.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:30.482][self$createEntryFromContent] Accession numbers: 71520.
biodb.TRACE[2025-08-30 16:03:30.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:30.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:30.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:30.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:30.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:30.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:30.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:30.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:30.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:30.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:30.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:30.510][private$loadEntries] Creating entries from ids [1]: "77600".
biodb.DEBUG[2025-08-30 16:03:30.511][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:30.513][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77600".
biodb.TRACE[2025-08-30 16:03:30.515][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:30.516][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:30.517][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:30.519][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:30.520][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:30.521][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:30.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:30.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:30.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:30.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:30.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:30.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:30.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:30.537][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.DEBUG[2025-08-30 16:03:30.541][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:30.542][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:30.544][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.TRACE[2025-08-30 16:03:30.918][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600).
biodb.DEBUG[2025-08-30 16:03:31.298][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:31.300][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.content"
biodb.TRACE[2025-08-30 16:03:31.304][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.request"
biodb.TRACE[2025-08-30 16:03:31.310][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77600.xml"
biodb.DEBUG[2025-08-30 16:03:31.312][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:31.314][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:31.315][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:31.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:31.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:31.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:31.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:31.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:31.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:31.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:31.331][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.333][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.342][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:31.343][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:31.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.347][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:31.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:31.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.352][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:31.353][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:31.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.357][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:31.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:31.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.362][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:31.364][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:31.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:31.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:31.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.373][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:31.374][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:31.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.378][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:31.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:31.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.384][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:31.385][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:31.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.389][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:31.390][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.394][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:31.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:31.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.410][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:31.411][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:31.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:31.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:31.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.420][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:31.422][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:31.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.425][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:31.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:31.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.431][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:31.432][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:31.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.436][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:31.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:31.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:31.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:31.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:31.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:31.492][self$createEntryFromContent] Accession numbers: 77600.
biodb.TRACE[2025-08-30 16:03:31.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:31.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:31.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:31.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:31.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:31.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:31.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:31.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:31.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:31.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:31.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:31.523][private$loadEntries] Creating entries from ids [1]: "77601".
biodb.DEBUG[2025-08-30 16:03:31.524][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:31.526][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77601".
biodb.TRACE[2025-08-30 16:03:31.528][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:31.529][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:31.531][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:31.532][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:31.533][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:31.535][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:31.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:31.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:31.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:31.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:31.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:31.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:31.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:31.552][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.DEBUG[2025-08-30 16:03:31.555][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:31.557][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:31.559][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.TRACE[2025-08-30 16:03:31.933][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601).
biodb.DEBUG[2025-08-30 16:03:32.315][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:32.317][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.content"
biodb.TRACE[2025-08-30 16:03:32.322][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.request"
biodb.TRACE[2025-08-30 16:03:32.343][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77601.xml"
biodb.DEBUG[2025-08-30 16:03:32.345][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:32.347][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:32.349][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:32.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:32.366][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.367][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:32.377][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:32.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.381][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:32.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:32.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.386][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:32.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:32.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.391][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:32.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:32.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.407][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:32.408][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:32.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:32.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:32.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.417][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:32.418][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:32.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:32.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:32.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.427][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:32.428][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:32.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.432][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:32.434][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.438][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:32.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.444][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.445][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.454][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:32.455][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:32.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:32.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:32.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.464][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:32.465][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:32.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.468][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.469][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:32.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:32.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.474][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:32.476][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:32.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.479][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:32.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:32.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:32.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:32.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:32.535][self$createEntryFromContent] Accession numbers: 77601.
biodb.TRACE[2025-08-30 16:03:32.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:32.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:32.552][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:32.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:32.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.579][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:32.581][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:32.582][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:32.583][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.584][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.586][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.591][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.596][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.597][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.601][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.602][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:32.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.619][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:03:32.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:32.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.643][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.645][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:32.646][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:32.647][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:32.648][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.653][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.661][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.663][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.667][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:32.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.684][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77600].
biodb.DEBUG[2025-08-30 16:03:32.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:32.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.708][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.709][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:32.711][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:32.712][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:32.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.715][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.719][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.720][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.724][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.725][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:32.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.731][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:32.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:32.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.749][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77601].
biodb.DEBUG[2025-08-30 16:03:32.750][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:32.751][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:03:32.762][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:32.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:32.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.768][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:32.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:32.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.773][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:32.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:32.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:03:32.782][biodb::testThat]
biodb.INFO [2025-08-30 16:03:32.783][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-30 16:03:32.785][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:03:32.786][biodb::testThat]
biodb.TRACE[2025-08-30 16:03:32.789][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:32.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:32.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.794][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:32.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:32.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.799][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:32.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:32.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:32.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:32.891][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:32.895][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:32.897][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:03:32.899][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:32.900][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:03:32.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:32.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:32.933][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:32.937][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:32.938][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:03:32.940][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:32.942][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:03:32.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:32.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:32.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:32.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:32.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:32.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:32.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:32.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:32.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:32.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:32.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:32.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:32.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.002][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:33.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.028][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.029][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:33.030][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:33.031][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:33.032][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.034][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.044][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.045][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.046][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.048][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.051][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:33.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.070][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:03:33.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.097][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:33.098][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:33.099][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:33.101][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.102][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.108][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.112][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.113][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.114][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.120][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:33.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.136][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:33.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.161][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.162][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:33.164][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:33.165][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:33.166][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.167][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.169][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.174][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.178][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.181][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.185][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:33.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.202][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:03:33.203][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:33.205][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:33.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:33.223][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:33.227][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:33.229][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:03:33.230][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:33.232][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:03:33.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.300][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:33.304][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:33.306][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:03:33.308][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:33.310][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:03:33.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.430][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:33.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.456][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:33.457][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:33.458][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:33.460][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.461][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.462][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.468][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.469][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.470][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.474][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.475][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.476][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.478][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.481][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:33.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.499][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:33.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.524][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.526][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:33.527][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:33.528][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:33.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.530][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.534][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.540][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.542][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.548][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:33.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.564][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:33.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.590][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:33.591][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:33.592][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:33.593][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.599][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.600][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.601][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.605][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.606][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:33.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.608][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.612][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:33.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:33.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.629][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:03:33.630][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:33.632][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:33.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:33.649][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:33.654][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:33.655][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:03:33.657][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:33.658][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:03:33.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.893][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:33.897][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:33.899][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:03:33.901][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:33.903][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:03:33.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:33.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:33.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:33.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:33.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:33.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:33.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:33.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:33.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:33.991][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:33.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:33.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:33.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.017][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.018][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:34.019][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:34.020][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:34.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.023][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.033][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.035][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.041][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:34.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.058][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:34.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.083][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.084][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:34.085][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:34.086][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:34.088][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.089][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.090][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.100][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.101][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.106][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:34.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.123][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:03:34.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.193][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.195][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:34.196][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:34.197][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:34.198][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.199][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.201][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.206][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.209][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.211][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.213][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.215][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.217][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:34.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.233][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:03:34.234][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:34.236][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:03:34.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:34.349][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:34.354][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:34.355][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:03:34.357][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:34.359][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:03:34.363][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:34.367][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:34.369][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:03:34.371][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:34.372][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:03:34.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.442][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.467][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:34.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.504][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.505][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:34.506][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:34.508][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:34.509][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.510][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.515][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.516][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.520][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.521][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.522][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.528][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:34.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.546][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:03:34.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.571][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.572][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:34.573][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:34.575][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:34.576][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.577][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.578][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.582][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.587][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.588][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.591][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.594][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:34.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.611][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:34.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.639][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:34.640][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:34.641][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:34.642][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.649][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.650][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.655][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.656][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.657][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.661][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:34.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.678][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:03:34.679][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:34.680][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:34.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:34.699][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:34.703][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:34.705][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:03:34.706][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:34.742][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:03:34.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.815][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:34.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:34.833][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:34.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.862][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:34.863][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:34.864][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:34.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.867][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.872][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.877][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.878][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.881][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.885][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:34.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.903][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:34.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.929][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:34.930][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:34.932][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:34.933][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.941][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.943][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.945][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.946][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.949][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.952][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.954][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:34.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.973][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:03:34.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:34.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:34.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:34.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:34.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:34.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:34.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:34.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:34.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:34.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:34.998][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:34.999][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:35.000][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:35.001][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:35.003][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.005][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.010][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.014][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.015][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.016][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.018][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.020][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.021][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:35.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.038][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:03:35.039][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:35.040][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:35.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:35.059][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:35.063][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:35.065][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:03:35.066][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:35.068][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:03:35.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:35.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:35.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:35.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:35.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:35.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:35.161][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:35.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.191][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:35.192][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:35.194][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:35.195][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.208][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.209][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.213][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.214][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.215][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.217][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.220][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:35.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.237][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:03:35.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:35.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.261][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.262][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:35.264][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:35.265][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:35.266][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.268][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.272][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.277][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.278][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.279][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.284][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:35.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.301][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:03:35.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:35.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.325][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.326][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:35.328][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:35.329][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:35.330][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.331][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.342][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.343][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:35.344][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.345][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.349][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:35.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:35.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.366][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2025-08-30 16:03:35.368][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:35.369][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:03:35.394][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:35.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:35.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.400][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:35.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:35.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.405][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:35.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:03:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.413][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:35.415][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:35.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:35.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.423][ef$get] fields variable is a list.
biodb.INFO [2025-08-30 16:03:35.425][biodb::testThat]
biodb.INFO [2025-08-30 16:03:35.426][biodb::testThat] Running test function test.annotateMzValues_real_values (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2025-08-30 16:03:35.427][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:03:35.428][biodb::testThat]
biodb.TRACE[2025-08-30 16:03:35.432][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:35.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:35.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.437][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:35.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:35.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.442][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:03:35.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:03:35.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:35.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:35.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:35.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:35.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:35.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:35.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:35.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:35.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:35.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:35.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:35.531][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:35.535][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:35.536][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:35.539][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:35.916][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:36.391][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:36.394][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content"
biodb.TRACE[2025-08-30 16:03:36.399][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.request"
biodb.DEBUG[2025-08-30 16:03:36.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:36.420][private$loadEntries] Creating entries from ids [1]: "3014".
biodb.DEBUG[2025-08-30 16:03:36.422][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:36.424][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3014".
biodb.TRACE[2025-08-30 16:03:36.425][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:36.427][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:36.428][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:36.430][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:36.431][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:36.432][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:36.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:36.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:36.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:36.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:36.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:36.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:36.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:36.449][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.DEBUG[2025-08-30 16:03:36.452][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:36.454][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:36.456][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.TRACE[2025-08-30 16:03:36.832][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014).
biodb.DEBUG[2025-08-30 16:03:37.213][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:37.216][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.content"
biodb.TRACE[2025-08-30 16:03:37.220][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.request"
biodb.TRACE[2025-08-30 16:03:37.224][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3014.xml"
biodb.DEBUG[2025-08-30 16:03:37.226][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:37.227][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:37.229][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:37.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:37.246][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.247][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.268][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:37.269][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:37.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.273][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:37.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:37.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.278][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:37.279][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:37.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.282][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.284][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:37.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:37.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.289][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:37.290][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:37.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.292][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:37.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:37.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.299][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:37.300][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:37.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.302][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:37.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:37.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.309][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:37.310][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:37.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.314][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:37.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:37.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.319][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:37.320][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.322][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.325][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:37.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:37.332][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:37.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:37.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:37.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.341][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:37.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:37.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.344][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:37.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:37.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.351][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:37.353][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:37.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.356][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:37.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:37.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.361][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:37.363][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:37.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.366][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:37.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:37.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:37.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:37.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:37.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.420][self$createEntryFromContent] Accession numbers: 3014.
biodb.TRACE[2025-08-30 16:03:37.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:37.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:37.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:37.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:37.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:37.451][private$loadEntries] Creating entries from ids [1]: "7567".
biodb.DEBUG[2025-08-30 16:03:37.454][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:37.456][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7567".
biodb.TRACE[2025-08-30 16:03:37.457][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:37.459][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:37.460][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:37.461][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:37.463][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:37.464][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:37.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:37.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:37.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:37.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:37.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:37.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:37.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:37.480][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.DEBUG[2025-08-30 16:03:37.484][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:37.485][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:37.487][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.TRACE[2025-08-30 16:03:37.860][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567).
biodb.DEBUG[2025-08-30 16:03:38.240][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:38.243][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.content"
biodb.TRACE[2025-08-30 16:03:38.249][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.request"
biodb.TRACE[2025-08-30 16:03:38.252][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7567.xml"
biodb.DEBUG[2025-08-30 16:03:38.254][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:38.256][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:38.258][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:38.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:38.275][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.276][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.286][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:38.287][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:38.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.292][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:38.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:38.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.297][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:38.299][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:38.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.303][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:38.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:38.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.308][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:38.310][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:38.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:38.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:38.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.319][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:38.321][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:38.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:38.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:38.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.330][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:38.331][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:38.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.335][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:38.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:38.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.340][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:38.342][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.344][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.346][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:38.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.351][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:38.352][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:38.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:38.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:38.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.361][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:38.363][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:38.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:38.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:38.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.372][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:38.373][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:38.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.377][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:38.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:38.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:38.384][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:38.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:38.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:38.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:38.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:38.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:38.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.445][self$createEntryFromContent] Accession numbers: 7567.
biodb.TRACE[2025-08-30 16:03:38.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:38.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:38.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:38.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:38.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:38.484][private$loadEntries] Creating entries from ids [1]: "8021".
biodb.DEBUG[2025-08-30 16:03:38.486][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:38.488][cch$loadFileContent] Trying to load 1 files from cache: [1]: "8021".
biodb.TRACE[2025-08-30 16:03:38.489][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:38.491][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:38.492][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:38.493][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:38.495][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:38.496][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:38.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:38.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:38.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:38.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:38.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:38.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:38.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:38.513][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.DEBUG[2025-08-30 16:03:38.517][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:38.518][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:38.520][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.TRACE[2025-08-30 16:03:38.893][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021).
biodb.DEBUG[2025-08-30 16:03:39.288][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:39.292][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.content"
biodb.TRACE[2025-08-30 16:03:39.300][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.request"
biodb.TRACE[2025-08-30 16:03:39.305][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8021.xml"
biodb.DEBUG[2025-08-30 16:03:39.309][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:39.313][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:39.315][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:39.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:39.345][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.348][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.364][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:39.367][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:39.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.374][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:39.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:39.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.384][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:39.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:39.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.393][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:39.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:39.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:39.403][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:39.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:39.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.419][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:39.422][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:39.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:39.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:39.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.438][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:39.441][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:39.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.447][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:39.450][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.456][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:39.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.462][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.463][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:39.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.472][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:39.473][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:39.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:39.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:39.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.483][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:39.484][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:39.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.488][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:39.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:39.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.493][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:39.494][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:39.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.497][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.498][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:39.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:39.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:39.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:39.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:39.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.557][self$createEntryFromContent] Accession numbers: 8021.
biodb.TRACE[2025-08-30 16:03:39.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:39.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:39.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:39.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:39.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:39.587][private$loadEntries] Creating entries from ids [1]: "30382".
biodb.DEBUG[2025-08-30 16:03:39.588][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:39.590][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30382".
biodb.TRACE[2025-08-30 16:03:39.591][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:39.593][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:39.594][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:39.595][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:39.597][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:39.598][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:39.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:39.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:39.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:39.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:39.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:39.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:39.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:39.614][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.DEBUG[2025-08-30 16:03:39.617][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:39.618][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:39.620][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.TRACE[2025-08-30 16:03:39.992][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382).
biodb.DEBUG[2025-08-30 16:03:40.371][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:40.373][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.content"
biodb.TRACE[2025-08-30 16:03:40.378][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.request"
biodb.TRACE[2025-08-30 16:03:40.381][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30382.xml"
biodb.DEBUG[2025-08-30 16:03:40.383][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:40.385][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:40.386][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:40.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.403][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.405][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.408][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.414][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:40.416][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:40.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.420][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:40.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:40.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.425][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:40.426][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:40.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.431][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:40.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.436][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:40.437][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:40.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:40.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:40.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.446][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:40.448][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:40.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.452][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:40.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.457][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:40.458][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:40.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.462][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:40.463][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:40.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.467][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:40.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:40.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.473][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.474][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:40.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.483][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:40.484][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:40.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.487][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:40.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:40.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.504][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:40.506][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:40.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.508][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.510][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:40.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:40.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.515][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:40.516][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:40.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.520][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:40.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:40.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:40.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:40.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:40.576][self$createEntryFromContent] Accession numbers: 30382.
biodb.TRACE[2025-08-30 16:03:40.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:40.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:40.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:40.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:40.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:40.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:40.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:40.592][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:40.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.617][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.618][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:40.619][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:40.621][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:40.622][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.623][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.624][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.627][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.628][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.629][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.633][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.634][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.635][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.637][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.640][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:40.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.658][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:03:40.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.684][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.685][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:40.686][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:40.688][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:40.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.695][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.697][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.698][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.703][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.704][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.706][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.709][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:40.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.730][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2025-08-30 16:03:40.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:40.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.758][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.760][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:40.762][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:40.763][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:40.764][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.766][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.776][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.777][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:40.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.779][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.783][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:40.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:40.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:40.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:40.800][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2025-08-30 16:03:40.801][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:40.803][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:40.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:40.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:40.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:40.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:40.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:40.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:40.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:40.821][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:40.826][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:40.827][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:40.829][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:41.215][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:41.603][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:41.606][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content"
biodb.TRACE[2025-08-30 16:03:41.612][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.request"
biodb.DEBUG[2025-08-30 16:03:41.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:41.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:41.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:41.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:41.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:41.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:41.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:41.630][private$loadEntries] Creating entries from ids [1]: "9710".
biodb.DEBUG[2025-08-30 16:03:41.631][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:41.633][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9710".
biodb.TRACE[2025-08-30 16:03:41.635][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:41.636][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:41.637][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:41.639][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:41.640][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:41.641][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:41.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:41.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:41.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:41.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:41.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:41.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:41.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:41.659][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.DEBUG[2025-08-30 16:03:41.662][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:41.664][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:41.665][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.TRACE[2025-08-30 16:03:42.039][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710).
biodb.DEBUG[2025-08-30 16:03:42.420][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:42.423][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.content"
biodb.TRACE[2025-08-30 16:03:42.427][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.request"
biodb.TRACE[2025-08-30 16:03:42.431][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9710.xml"
biodb.DEBUG[2025-08-30 16:03:42.433][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:42.434][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:42.435][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:42.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:42.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:42.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:42.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:42.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:42.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:42.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:42.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.454][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.456][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.463][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:42.465][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:42.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.467][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.469][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:42.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:42.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.486][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:42.487][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:42.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.491][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:42.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:42.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.497][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:42.498][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:42.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:42.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:42.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.507][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:42.508][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:42.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:42.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:42.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.517][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:42.519][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:42.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.523][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:42.524][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.528][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:42.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.534][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.535][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:42.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.544][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:42.545][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:42.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:42.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:42.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.555][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:42.556][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:42.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.560][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:42.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:42.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.565][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:42.566][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:42.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:42.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:42.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:42.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:42.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:42.625][self$createEntryFromContent] Accession numbers: 9710.
biodb.TRACE[2025-08-30 16:03:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:42.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:42.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:42.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:42.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:42.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:42.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:42.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:42.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:42.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:42.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:42.655][private$loadEntries] Creating entries from ids [1]: "65530".
biodb.DEBUG[2025-08-30 16:03:42.656][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:42.658][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65530".
biodb.TRACE[2025-08-30 16:03:42.660][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:42.661][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:42.663][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:42.664][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:42.665][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:42.666][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:42.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:42.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:42.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:42.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:42.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:42.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:42.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:42.683][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.DEBUG[2025-08-30 16:03:42.686][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:42.687][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:42.689][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.TRACE[2025-08-30 16:03:43.062][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530).
biodb.DEBUG[2025-08-30 16:03:43.442][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:43.445][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.content"
biodb.TRACE[2025-08-30 16:03:43.449][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.request"
biodb.TRACE[2025-08-30 16:03:43.452][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65530.xml"
biodb.DEBUG[2025-08-30 16:03:43.454][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:43.456][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:43.457][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:43.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:43.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:43.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:43.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:43.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:43.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:43.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:43.473][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.475][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.485][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:43.486][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:43.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.491][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:43.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:43.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.496][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:43.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:43.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.503][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:43.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:43.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.508][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:43.510][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:43.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.512][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:43.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:43.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:43.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:43.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:43.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.529][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:43.530][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:43.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.534][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:43.536][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:43.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.538][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.539][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:43.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:43.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.544][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:43.546][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:43.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:43.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:43.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.555][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:43.556][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:43.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:43.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:43.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.565][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:43.566][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:43.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.570][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:43.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:43.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.575][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:43.576][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:43.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.579][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.580][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:43.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:43.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:43.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:43.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:43.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:43.636][self$createEntryFromContent] Accession numbers: 65530.
biodb.TRACE[2025-08-30 16:03:43.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:43.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:43.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:43.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:43.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:43.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:43.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:43.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:43.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:43.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:43.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:43.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:43.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:43.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:43.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:43.675][private$loadEntries] Creating entries from ids [1]: "72338".
biodb.DEBUG[2025-08-30 16:03:43.676][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:43.678][cch$loadFileContent] Trying to load 1 files from cache: [1]: "72338".
biodb.TRACE[2025-08-30 16:03:43.680][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:43.681][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:43.682][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:43.684][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:43.685][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:43.686][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:43.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:43.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:43.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:43.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:43.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:43.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:43.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:43.703][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.DEBUG[2025-08-30 16:03:43.707][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:43.708][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:43.710][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.TRACE[2025-08-30 16:03:44.082][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338).
biodb.DEBUG[2025-08-30 16:03:44.455][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:44.458][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.content"
biodb.TRACE[2025-08-30 16:03:44.463][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.request"
biodb.TRACE[2025-08-30 16:03:44.467][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/72338.xml"
biodb.DEBUG[2025-08-30 16:03:44.469][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:44.470][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:44.471][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:44.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:44.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:44.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:44.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:44.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:44.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:44.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:44.488][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.490][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.499][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:44.502][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:44.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.506][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:44.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:44.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.512][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:44.513][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:44.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.517][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:44.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:44.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.523][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:44.525][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:44.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:44.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:44.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.534][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:44.535][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:44.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.538][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:44.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:44.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.545][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:44.546][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:44.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.550][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:44.551][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:44.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:44.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:44.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.561][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:44.562][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:44.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.564][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:44.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:44.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.571][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:44.572][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:44.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:44.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:44.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.582][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:44.584][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:44.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.588][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:44.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:44.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.593][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:44.594][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:44.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.597][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:44.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:44.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:44.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:44.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:44.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:44.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:44.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:44.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:44.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:44.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:44.709][self$createEntryFromContent] Accession numbers: 72338.
biodb.TRACE[2025-08-30 16:03:44.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:44.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:44.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:44.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:44.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:44.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:44.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:44.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:44.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:44.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:44.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:44.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:44.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:44.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:44.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:44.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:44.740][private$loadEntries] Creating entries from ids [1]: "77926".
biodb.DEBUG[2025-08-30 16:03:44.741][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:44.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77926".
biodb.TRACE[2025-08-30 16:03:44.746][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:44.747][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:44.749][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:44.750][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:44.752][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:44.753][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:44.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:44.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:44.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:44.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:44.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:44.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:44.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:44.771][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.DEBUG[2025-08-30 16:03:44.774][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:44.776][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:44.778][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.TRACE[2025-08-30 16:03:45.152][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926).
biodb.DEBUG[2025-08-30 16:03:45.529][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:45.531][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.content"
biodb.TRACE[2025-08-30 16:03:45.536][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.request"
biodb.TRACE[2025-08-30 16:03:45.539][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77926.xml"
biodb.DEBUG[2025-08-30 16:03:45.541][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:45.542][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:45.543][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:45.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:45.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:45.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:45.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:45.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:45.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:45.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:45.602][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.603][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.612][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:45.614][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:45.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.618][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:45.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:45.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.623][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:45.624][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:45.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.626][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.628][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:45.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.633][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:45.634][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:45.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.637][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:45.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:45.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.643][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:45.645][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:45.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:45.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:45.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:45.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:45.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.659][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:45.661][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.664][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:45.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.669][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.671][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:45.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.680][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:45.681][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:45.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:45.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:45.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.691][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:45.692][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:45.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.696][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:45.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:45.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.701][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:45.702][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:45.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.717][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:45.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:45.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:45.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:45.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:45.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:45.773][self$createEntryFromContent] Accession numbers: 77926.
biodb.TRACE[2025-08-30 16:03:45.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:45.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:45.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:45.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:45.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:45.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:45.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:45.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:45.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:45.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:45.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:45.803][private$loadEntries] Creating entries from ids [1]: "82369".
biodb.DEBUG[2025-08-30 16:03:45.804][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:45.806][cch$loadFileContent] Trying to load 1 files from cache: [1]: "82369".
biodb.TRACE[2025-08-30 16:03:45.808][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:45.809][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:45.810][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:45.812][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:45.813][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:45.814][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:45.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:45.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:45.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:45.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:45.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:45.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:45.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:45.831][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.DEBUG[2025-08-30 16:03:45.835][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:45.836][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:45.838][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.TRACE[2025-08-30 16:03:46.215][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369).
biodb.DEBUG[2025-08-30 16:03:46.595][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:46.597][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.content"
biodb.TRACE[2025-08-30 16:03:46.602][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.request"
biodb.TRACE[2025-08-30 16:03:46.605][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/82369.xml"
biodb.DEBUG[2025-08-30 16:03:46.607][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:46.609][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:46.610][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:46.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:46.627][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.628][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.638][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:46.639][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:46.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.643][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:46.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.648][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:46.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:46.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.653][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:46.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:46.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.659][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:46.660][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:46.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:46.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:46.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.669][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:46.670][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:46.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:46.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:46.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.679][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:46.681][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:46.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.684][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:46.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:46.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.690][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:46.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.695][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:46.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.700][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.702][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:46.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.711][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:46.712][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:46.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.716][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:46.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:46.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.722][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:46.723][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:46.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:46.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:46.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.732][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:46.734][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:46.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.738][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:46.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:46.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:46.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:46.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:46.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:46.794][self$createEntryFromContent] Accession numbers: 82369.
biodb.TRACE[2025-08-30 16:03:46.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:46.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:46.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:46.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:46.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:46.824][private$loadEntries] Creating entries from ids [1]: "90204".
biodb.DEBUG[2025-08-30 16:03:46.825][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:46.827][cch$loadFileContent] Trying to load 1 files from cache: [1]: "90204".
biodb.TRACE[2025-08-30 16:03:46.829][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:46.830][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:46.832][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:46.833][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:46.834][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:46.835][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:46.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:46.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:46.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:46.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:46.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:46.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:46.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:46.852][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.DEBUG[2025-08-30 16:03:46.856][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:46.857][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:46.859][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.TRACE[2025-08-30 16:03:47.233][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204).
biodb.DEBUG[2025-08-30 16:03:47.613][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:47.616][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.content"
biodb.TRACE[2025-08-30 16:03:47.620][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.request"
biodb.TRACE[2025-08-30 16:03:47.623][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/90204.xml"
biodb.DEBUG[2025-08-30 16:03:47.625][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:47.627][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:47.628][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:47.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:47.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:47.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:47.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:47.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:47.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:47.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:47.675][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.677][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.685][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:47.697][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:47.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.701][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:47.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:47.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.706][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:47.708][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:47.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.711][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:47.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:47.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.716][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:47.718][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:47.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:47.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:47.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.726][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:47.728][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:47.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.731][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:47.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:47.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.736][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:47.738][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:47.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.741][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:47.743][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.745][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.746][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:47.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.751][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:47.753][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:47.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.755][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.761][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:47.763][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:47.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:47.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.772][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:47.773][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:47.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.810][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:47.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:47.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.815][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:47.816][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:47.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.821][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:47.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:47.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:47.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:47.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:47.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:47.876][self$createEntryFromContent] Accession numbers: 90204.
biodb.TRACE[2025-08-30 16:03:47.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:47.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:47.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:47.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:47.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:47.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:47.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:47.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:47.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:47.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:47.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:47.907][private$loadEntries] Creating entries from ids [1]: "132793".
biodb.DEBUG[2025-08-30 16:03:47.908][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:47.910][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132793".
biodb.TRACE[2025-08-30 16:03:47.911][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:47.915][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:47.916][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:47.918][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:47.919][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:47.920][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:47.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:47.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:47.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:47.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:47.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:47.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:47.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:47.936][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.DEBUG[2025-08-30 16:03:47.939][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:47.941][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:47.942][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.TRACE[2025-08-30 16:03:48.316][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793).
biodb.DEBUG[2025-08-30 16:03:48.698][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:48.703][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.content"
biodb.TRACE[2025-08-30 16:03:48.708][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.request"
biodb.TRACE[2025-08-30 16:03:48.711][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132793.xml"
biodb.DEBUG[2025-08-30 16:03:48.713][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:48.715][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:48.716][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:48.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:48.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:48.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:48.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:48.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:48.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:48.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:48.733][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.734][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.743][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:48.744][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:48.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.749][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:48.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:48.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.754][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:48.755][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:48.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:48.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:48.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.764][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:48.766][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:48.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:48.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:48.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.775][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:48.776][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:48.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:48.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:48.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.785][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:48.786][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:48.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.791][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:48.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:48.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.796][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:48.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.802][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:48.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.849][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:48.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.859][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:48.860][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:48.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.864][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:48.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:48.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.869][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:48.871][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:48.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.875][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:48.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:48.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.880][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:48.881][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:48.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:48.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:48.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:48.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:48.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:48.942][self$createEntryFromContent] Accession numbers: 132793.
biodb.TRACE[2025-08-30 16:03:48.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:48.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:48.967][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:48.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:48.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:48.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:48.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:48.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:48.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:48.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:48.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:48.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:48.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:48.993][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:48.994][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:48.995][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:48.996][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:48.998][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:48.999][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.000][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.005][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.009][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.010][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.013][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.015][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.016][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:49.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.033][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2025-08-30 16:03:49.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:49.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:49.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:49.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:49.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:49.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:49.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:49.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.058][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:49.059][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:49.060][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:49.062][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.069][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.073][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.075][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.079][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:49.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.095][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2025-08-30 16:03:49.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:49.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:49.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:49.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:49.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:49.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:49.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:49.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.123][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:49.125][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:49.126][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:49.127][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.130][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.132][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.137][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.138][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.139][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:49.140][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.145][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:49.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:49.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:49.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:49.162][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2025-08-30 16:03:49.163][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:49.165][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:49.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:49.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:49.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:49.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:49.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:49.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:49.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:49.191][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:49.195][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:49.196][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:49.199][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:49.573][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:49.947][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:49.949][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content"
biodb.TRACE[2025-08-30 16:03:49.954][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.request"
biodb.DEBUG[2025-08-30 16:03:49.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:49.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:49.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:49.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:49.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:49.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:49.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:49.972][private$loadEntries] Creating entries from ids [1]: "131378".
biodb.DEBUG[2025-08-30 16:03:49.973][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:49.975][cch$loadFileContent] Trying to load 1 files from cache: [1]: "131378".
biodb.TRACE[2025-08-30 16:03:49.977][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:49.978][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:49.980][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:49.981][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:49.983][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:49.984][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:49.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:49.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:49.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:49.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:49.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:49.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:49.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:50.001][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.DEBUG[2025-08-30 16:03:50.004][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:50.006][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:50.007][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.TRACE[2025-08-30 16:03:50.380][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378).
biodb.DEBUG[2025-08-30 16:03:50.755][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:50.758][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.content"
biodb.TRACE[2025-08-30 16:03:50.763][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.request"
biodb.TRACE[2025-08-30 16:03:50.767][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/131378.xml"
biodb.DEBUG[2025-08-30 16:03:50.771][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:50.772][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:50.774][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:50.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:50.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:50.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:50.791][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.793][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.802][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:50.804][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:50.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.808][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:50.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:50.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.813][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:50.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:50.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:50.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:50.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.824][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:50.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:50.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.828][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:50.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:50.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.834][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:50.835][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:50.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.840][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:50.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:50.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.845][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:50.846][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:50.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.850][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:50.852][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.855][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:50.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.861][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.862][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:50.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.871][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:50.872][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:50.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:50.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:50.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.882][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:50.883][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:50.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.887][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:50.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:50.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.892][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:50.893][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:50.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.896][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.897][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:50.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:50.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:50.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:50.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:50.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:50.963][self$createEntryFromContent] Accession numbers: 131378.
biodb.TRACE[2025-08-30 16:03:50.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:50.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:50.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:50.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:50.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:50.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:50.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:50.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:50.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:50.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:50.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:50.993][private$loadEntries] Creating entries from ids [1]: "214202".
biodb.DEBUG[2025-08-30 16:03:50.994][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:50.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "214202".
biodb.TRACE[2025-08-30 16:03:50.998][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:50.999][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:51.000][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:51.002][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:51.003][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:51.004][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:51.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:51.021][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.DEBUG[2025-08-30 16:03:51.025][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:51.026][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:51.028][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.TRACE[2025-08-30 16:03:51.402][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202).
biodb.DEBUG[2025-08-30 16:03:51.779][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:51.781][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.content"
biodb.TRACE[2025-08-30 16:03:51.785][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.request"
biodb.TRACE[2025-08-30 16:03:51.789][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/214202.xml"
biodb.DEBUG[2025-08-30 16:03:51.791][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:51.792][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:51.794][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:51.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:51.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:51.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:51.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:51.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:51.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:51.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:51.843][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:51.845][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:51.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:51.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:51.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.854][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:51.855][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:51.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.858][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.859][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:51.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:51.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.864][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:51.865][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:51.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.870][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:51.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:51.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.875][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:51.876][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:51.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.878][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:51.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:51.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.885][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:51.886][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:51.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:51.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:51.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.895][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:51.896][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:51.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.900][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:51.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:51.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.905][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:51.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:51.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.911][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:51.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.920][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:51.922][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:51.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.924][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:51.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:51.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.931][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:51.932][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:51.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.936][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:51.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:51.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:51.943][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:51.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.947][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:51.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:51.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:51.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:51.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:51.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:51.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:51.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:51.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:51.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:51.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:51.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:51.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:51.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:51.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:51.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:51.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:51.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:52.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:52.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:52.004][self$createEntryFromContent] Accession numbers: 214202.
biodb.TRACE[2025-08-30 16:03:52.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:52.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:52.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:52.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:52.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:52.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:52.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:52.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:52.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:52.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:52.022][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:52.026][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:52.028][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:52.030][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:52.404][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:52.777][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:52.779][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content"
biodb.TRACE[2025-08-30 16:03:52.784][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.request"
biodb.DEBUG[2025-08-30 16:03:52.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:52.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:52.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:52.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:52.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:52.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:52.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:52.802][private$loadEntries] Creating entries from ids [1]: "51836".
biodb.DEBUG[2025-08-30 16:03:52.803][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:52.805][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51836".
biodb.TRACE[2025-08-30 16:03:52.807][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:52.808][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:52.810][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:52.811][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:52.813][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:52.814][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:52.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:52.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:52.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:52.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:52.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:52.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:52.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:52.831][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.DEBUG[2025-08-30 16:03:52.834][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:52.836][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:52.838][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.TRACE[2025-08-30 16:03:53.212][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836).
biodb.DEBUG[2025-08-30 16:03:53.602][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:53.604][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.content"
biodb.TRACE[2025-08-30 16:03:53.609][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.request"
biodb.TRACE[2025-08-30 16:03:53.612][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51836.xml"
biodb.DEBUG[2025-08-30 16:03:53.614][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:53.616][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:53.617][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:53.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:53.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:53.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:53.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:53.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:53.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:53.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:53.649][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.651][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.653][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.660][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:53.661][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:53.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.665][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:53.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:53.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.670][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:53.671][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:53.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.675][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:53.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:53.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.680][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:53.681][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:53.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:53.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:53.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.690][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:53.692][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:53.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:53.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:53.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.701][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:53.702][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:53.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.706][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:53.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:53.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.711][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:53.713][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.717][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:53.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:53.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.734][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:53.736][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:53.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.740][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:53.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:53.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.745][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:53.746][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:53.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.750][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:53.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:53.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:53.756][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:53.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.760][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:53.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:53.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:53.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:53.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:53.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:53.820][self$createEntryFromContent] Accession numbers: 51836.
biodb.TRACE[2025-08-30 16:03:53.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:53.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:53.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:53.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:53.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:53.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:53.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:53.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:53.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:53.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:53.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:53.852][private$loadEntries] Creating entries from ids [1]: "51837".
biodb.DEBUG[2025-08-30 16:03:53.922][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:53.925][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51837".
biodb.TRACE[2025-08-30 16:03:53.926][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:53.927][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:53.929][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:53.930][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:53.931][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:53.932][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:53.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:53.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:53.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:53.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:53.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:53.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:53.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:53.949][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.DEBUG[2025-08-30 16:03:53.952][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:53.953][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:53.955][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.TRACE[2025-08-30 16:03:54.327][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837).
biodb.DEBUG[2025-08-30 16:03:54.701][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:54.703][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.content"
biodb.TRACE[2025-08-30 16:03:54.709][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.request"
biodb.TRACE[2025-08-30 16:03:54.712][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51837.xml"
biodb.DEBUG[2025-08-30 16:03:54.714][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:54.716][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:54.717][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:54.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:54.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:54.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:54.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:54.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:54.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:54.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:54.734][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.735][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.737][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.744][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:54.745][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:54.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.750][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:54.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:54.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.755][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:54.756][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:54.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.760][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:54.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:54.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.765][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:54.766][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:54.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:54.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:54.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.776][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:54.777][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:54.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:54.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:54.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.786][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:54.787][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:54.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.791][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:54.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:54.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.796][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:54.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:54.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.802][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:54.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:54.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.807][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.808][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:54.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.818][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:54.819][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:54.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.823][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:54.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:54.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.828][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:54.830][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:54.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.834][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:54.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:54.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.839][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:54.841][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:54.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.845][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:54.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:54.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:54.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:54.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:54.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:54.913][self$createEntryFromContent] Accession numbers: 51837.
biodb.TRACE[2025-08-30 16:03:54.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:54.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:54.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:54.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:54.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:54.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:54.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:55.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:55.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:55.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:55.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:55.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:55.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:55.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:55.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:55.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:55.119][private$loadEntries] Creating entries from ids [1]: "132205".
biodb.DEBUG[2025-08-30 16:03:55.121][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:55.122][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132205".
biodb.TRACE[2025-08-30 16:03:55.124][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:55.125][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:55.127][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:55.128][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:55.130][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:55.131][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:55.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:55.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:55.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:55.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:55.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:55.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:55.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:55.148][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.DEBUG[2025-08-30 16:03:55.151][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:55.152][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:55.154][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.TRACE[2025-08-30 16:03:55.528][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205).
biodb.DEBUG[2025-08-30 16:03:55.902][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:55.904][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.content"
biodb.TRACE[2025-08-30 16:03:55.908][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.request"
biodb.TRACE[2025-08-30 16:03:55.911][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132205.xml"
biodb.DEBUG[2025-08-30 16:03:55.913][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:55.915][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:55.916][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:55.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:55.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:55.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:55.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:55.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:55.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:55.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:55.932][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.934][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.936][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:55.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:55.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.946][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:55.948][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:55.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.952][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:55.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:55.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.957][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:55.958][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:55.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.962][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:55.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:55.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.967][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:55.969][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:55.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.971][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.973][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:55.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:55.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.978][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:55.979][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:55.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.982][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:55.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:55.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.988][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:55.989][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:55.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.993][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:55.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:55.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:55.997][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:55.999][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:56.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.005][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.007][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:56.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.014][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:56.015][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:56.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:56.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:56.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.025][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:56.026][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:56.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.030][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:56.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:56.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.035][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:56.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:56.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:56.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:56.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:56.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:56.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.098][self$createEntryFromContent] Accession numbers: 132205.
biodb.TRACE[2025-08-30 16:03:56.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.115][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:56.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.142][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:56.143][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:56.144][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:56.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.147][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.148][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.152][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.153][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.157][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.158][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.161][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.231][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:56.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.249][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2025-08-30 16:03:56.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.274][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.275][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:56.276][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:56.277][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:56.278][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.280][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.285][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.286][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.288][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.290][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.291][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.292][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.294][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.296][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.297][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:56.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.314][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2025-08-30 16:03:56.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.348][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.349][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:56.351][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:56.352][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:56.353][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.354][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.358][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.359][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.361][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.363][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.364][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.366][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.372][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:56.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.389][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2025-08-30 16:03:56.390][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:56.391][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:56.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:56.496][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:56.500][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:56.502][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:03:56.504][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:56.505][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:03:56.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.539][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:56.543][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:56.545][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:03:56.546][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:56.548][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:03:56.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.611][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:56.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.638][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:56.639][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:56.641][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:56.642][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.643][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.648][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.650][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.655][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.656][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.657][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.661][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:56.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.679][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:03:56.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.703][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.705][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:56.706][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:56.707][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:56.708][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.711][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.721][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.724][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.727][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:56.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.744][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:03:56.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.770][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:56.771][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:56.772][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:56.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.776][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.786][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:56.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.793][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:56.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:56.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.810][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:03:56.812][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:56.813][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:56.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:56.831][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:56.836][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:56.837][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:03:56.839][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:56.841][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:03:56.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.908][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:56.912][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:56.914][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:03:56.915][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:56.917][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:03:56.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:56.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:56.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:56.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:56.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:56.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:56.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:56.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:56.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:56.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:56.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:56.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.009][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:57.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.080][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.081][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.082][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.084][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.085][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.086][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.090][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.091][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.095][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.096][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.103][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.120][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:03:57.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.149][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.150][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.151][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.152][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.153][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.161][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.165][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.166][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.168][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.169][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.173][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.190][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:03:57.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.215][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.217][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.218][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.219][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.228][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.232][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.234][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.239][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.240][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.258][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:03:57.259][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:57.260][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:57.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:57.279][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:57.283][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:57.285][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:03:57.287][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:57.289][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:03:57.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.591][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:57.596][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:03:57.598][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:03:57.600][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:03:57.601][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:03:57.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.703][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:57.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:57.731][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:03:57.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.759][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.760][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.761][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.763][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.764][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.776][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.777][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.784][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.801][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:03:57.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.827][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.828][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.830][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.831][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.839][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.840][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.845][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.850][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.851][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.868][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:03:57.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:57.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.903][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.904][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:03:57.905][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:03:57.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:03:57.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.913][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.918][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.919][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.920][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:03:57.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.923][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.926][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:03:57.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:57.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:57.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:57.943][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:03:57.944][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:03:57.946][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:03:57.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:57.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:57.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:57.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:57.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:57.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:57.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:57.987][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:03:57.991][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:57.992][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:57.995][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:03:58.370][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:03:58.744][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:58.747][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content"
biodb.TRACE[2025-08-30 16:03:58.753][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.request"
biodb.DEBUG[2025-08-30 16:03:58.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:58.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:58.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:58.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:58.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:58.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:58.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:58.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:58.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:58.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:58.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:58.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:58.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:58.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:58.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:58.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:58.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:58.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:58.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:58.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:58.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:58.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:58.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:58.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:58.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:58.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:58.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:58.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:58.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:58.829][private$loadEntries] Creating entries from ids [1]: "28243".
biodb.DEBUG[2025-08-30 16:03:58.831][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:58.833][cch$loadFileContent] Trying to load 1 files from cache: [1]: "28243".
biodb.TRACE[2025-08-30 16:03:58.834][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:58.836][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:58.837][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:58.838][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:58.840][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:58.841][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:58.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:58.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:58.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:58.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:58.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:58.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:58.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:58.858][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.DEBUG[2025-08-30 16:03:58.862][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:03:58.863][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:03:58.865][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.TRACE[2025-08-30 16:03:59.241][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243).
biodb.DEBUG[2025-08-30 16:03:59.630][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:03:59.633][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.content"
biodb.TRACE[2025-08-30 16:03:59.693][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.request"
biodb.TRACE[2025-08-30 16:03:59.705][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/28243.xml"
biodb.DEBUG[2025-08-30 16:03:59.708][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:03:59.710][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:03:59.711][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:03:59.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:59.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:59.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:59.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:59.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:59.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:59.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:59.728][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.730][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.732][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.739][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:59.741][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:59.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.745][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:03:59.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:03:59.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.750][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:59.751][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:59.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.756][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:03:59.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:03:59.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.761][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:59.762][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:59.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:03:59.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:03:59.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.771][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:59.773][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:59.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:03:59.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:03:59.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.782][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:59.784][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:59.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.788][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:59.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:03:59.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.793][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:59.795][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.797][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.799][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:03:59.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.804][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:03:59.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.815][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:59.816][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:59.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:03:59.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:03:59.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.825][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:59.827][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:59.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.831][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:03:59.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:03:59.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.836][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:59.837][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:59.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:03:59.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:03:59.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:03:59.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:03:59.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:03:59.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:59.899][self$createEntryFromContent] Accession numbers: 28243.
biodb.TRACE[2025-08-30 16:03:59.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:59.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:59.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:59.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:59.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:59.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:59.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:59.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:03:59.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:03:59.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:03:59.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:03:59.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:03:59.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:59.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:59.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:59.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:59.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:59.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:59.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:03:59.971][private$loadEntries] Creating entries from ids [1]: "70786".
biodb.DEBUG[2025-08-30 16:03:59.972][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:03:59.974][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70786".
biodb.TRACE[2025-08-30 16:03:59.976][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:03:59.977][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:03:59.979][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:03:59.980][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:03:59.982][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:03:59.983][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:03:59.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:03:59.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:03:59.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:03:59.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:03:59.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:03:59.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:03:59.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:00.000][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.DEBUG[2025-08-30 16:04:00.004][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:00.005][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:00.007][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.TRACE[2025-08-30 16:04:00.379][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786).
biodb.DEBUG[2025-08-30 16:04:00.760][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:00.762][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.content"
biodb.TRACE[2025-08-30 16:04:00.767][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.request"
biodb.TRACE[2025-08-30 16:04:00.771][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70786.xml"
biodb.DEBUG[2025-08-30 16:04:00.774][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:00.775][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:00.777][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:00.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:00.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:00.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:00.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:00.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:00.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:00.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:00.793][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.794][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.803][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:00.804][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:00.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.808][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:00.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:00.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.813][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:00.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:00.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.819][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:00.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:00.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.824][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:00.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:00.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.828][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:00.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:00.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.835][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:00.836][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:00.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:00.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:00.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.846][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:00.847][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:00.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.891][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:00.893][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:00.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.895][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.897][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:00.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:00.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.903][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.906][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:00.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.912][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:00.914][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:00.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:00.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:00.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.924][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:00.925][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:00.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.929][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:00.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:00.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.934][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:00.935][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:00.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:00.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:00.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:00.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:00.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:00.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:00.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:00.994][self$createEntryFromContent] Accession numbers: 70786.
biodb.TRACE[2025-08-30 16:04:00.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:00.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:00.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:00.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:01.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:01.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:01.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:01.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:01.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:01.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:01.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:01.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:01.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:01.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:01.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:01.024][private$loadEntries] Creating entries from ids [1]: "78144".
biodb.DEBUG[2025-08-30 16:04:01.025][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:01.028][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78144".
biodb.TRACE[2025-08-30 16:04:01.029][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:01.031][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:01.032][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:01.034][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:01.035][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:01.036][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:01.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:01.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:01.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:01.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:01.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:01.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:01.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:01.053][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.DEBUG[2025-08-30 16:04:01.057][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:01.058][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:01.060][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.TRACE[2025-08-30 16:04:01.433][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144).
biodb.DEBUG[2025-08-30 16:04:01.808][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:01.810][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.content"
biodb.TRACE[2025-08-30 16:04:01.815][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.request"
biodb.TRACE[2025-08-30 16:04:01.818][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78144.xml"
biodb.DEBUG[2025-08-30 16:04:01.820][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:01.822][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:01.823][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:01.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:01.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:01.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:01.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:01.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:01.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:01.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:01.840][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.841][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.850][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:01.851][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:01.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.855][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:01.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:01.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.860][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:01.862][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:01.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.866][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:01.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:01.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.871][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:01.872][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:01.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.876][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:01.877][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:01.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:01.882][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:01.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.886][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:01.888][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:01.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.891][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:01.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:01.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.909][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:01.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.918][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:01.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:01.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:01.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:01.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.928][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:01.930][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:01.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.934][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:01.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:01.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.939][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:01.940][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:01.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.943][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.944][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:01.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:01.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:01.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:01.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:01.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:01.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:01.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:02.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:02.003][self$createEntryFromContent] Accession numbers: 78144.
biodb.TRACE[2025-08-30 16:04:02.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:02.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:02.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:02.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:02.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:02.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:02.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:02.020][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:02.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:02.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:02.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:02.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:02.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:02.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:02.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:02.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.045][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.046][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:02.048][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:02.049][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:02.050][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.058][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.063][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.069][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:02.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.086][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:04:02.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:02.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:02.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:02.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:02.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:02.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:02.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:02.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.110][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.111][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:02.112][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:02.114][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:02.115][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.116][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.117][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.120][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.121][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.126][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.127][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.129][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.132][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.133][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:02.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.149][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2025-08-30 16:04:02.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:02.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:02.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:02.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:02.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:02.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:02.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:02.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.175][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:02.177][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:02.178][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:02.179][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.191][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.192][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:02.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.195][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.198][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:02.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:02.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:02.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:02.215][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2025-08-30 16:04:02.216][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:02.218][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:02.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:02.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:02.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:02.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:02.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:02.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:02.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:02.236][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:02.240][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:02.241][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:02.244][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:04:02.621][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:04:03.089][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:03.092][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content"
biodb.TRACE[2025-08-30 16:04:03.097][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.request"
biodb.DEBUG[2025-08-30 16:04:03.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:03.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:03.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:03.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:03.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:03.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:03.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:03.209][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:03.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:03.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.237][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.238][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:03.239][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:03.240][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:03.242][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.246][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.248][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.253][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.254][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.255][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.256][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.260][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:03.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.276][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:03.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:03.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.302][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.303][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:03.304][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:03.306][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:03.307][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.313][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.314][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.317][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.318][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.319][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.320][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.322][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.325][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:03.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.342][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:04:03.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:03.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.368][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.369][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:03.370][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:03.371][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:03.373][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.374][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.380][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.384][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.385][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:03.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.391][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:03.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:03.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:03.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:03.409][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:04:03.410][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:03.412][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:03.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:03.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:03.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:03.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:03.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:03.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:03.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:03.431][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:03.436][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:03.437][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:03.440][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:04:03.821][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:04:04.202][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:04.205][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content"
biodb.TRACE[2025-08-30 16:04:04.210][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.request"
biodb.DEBUG[2025-08-30 16:04:04.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:04.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:04.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:04.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:04.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:04.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:04.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:04.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:04.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:04.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:04.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:04.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:04.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:04.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:04.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:04.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:04.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:04.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:04.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:04.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:04.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:04.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:04.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:04.256][private$loadEntries] Creating entries from ids [1]: "47739".
biodb.DEBUG[2025-08-30 16:04:04.258][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:04.260][cch$loadFileContent] Trying to load 1 files from cache: [1]: "47739".
biodb.TRACE[2025-08-30 16:04:04.261][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:04.263][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:04.264][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:04.265][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:04.267][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:04.268][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:04.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:04.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:04.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:04.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:04.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:04.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:04.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:04.285][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.DEBUG[2025-08-30 16:04:04.288][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:04.289][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:04.291][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.TRACE[2025-08-30 16:04:04.664][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739).
biodb.DEBUG[2025-08-30 16:04:05.040][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:05.043][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.content"
biodb.TRACE[2025-08-30 16:04:05.047][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.request"
biodb.TRACE[2025-08-30 16:04:05.050][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/47739.xml"
biodb.DEBUG[2025-08-30 16:04:05.052][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:05.054][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:05.055][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:05.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:05.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:05.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:05.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:05.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:05.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:05.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:05.072][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.074][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.083][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:05.084][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:05.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.088][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:05.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:05.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.093][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:05.095][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:05.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:05.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:05.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.104][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:05.105][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:05.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:05.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:05.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.114][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:05.115][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:05.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:05.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:05.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.124][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:05.125][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:05.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.128][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.129][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:05.131][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.135][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:05.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.152][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:05.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.162][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:05.164][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:05.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.166][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:05.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:05.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.172][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:05.174][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:05.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.177][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:05.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:05.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.182][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:05.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:05.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.187][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:05.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:05.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:05.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:05.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:05.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:05.252][self$createEntryFromContent] Accession numbers: 47739.
biodb.TRACE[2025-08-30 16:04:05.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:05.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:05.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:05.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:05.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:05.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:05.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:05.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:05.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:05.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:05.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:05.282][private$loadEntries] Creating entries from ids [1]: "51744".
biodb.DEBUG[2025-08-30 16:04:05.283][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:05.285][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51744".
biodb.TRACE[2025-08-30 16:04:05.286][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:05.288][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:05.289][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:05.290][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:05.292][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:05.293][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:05.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:05.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:05.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:05.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:05.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:05.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:05.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:05.310][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.DEBUG[2025-08-30 16:04:05.314][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:05.315][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:05.317][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.TRACE[2025-08-30 16:04:05.691][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744).
biodb.DEBUG[2025-08-30 16:04:06.064][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:06.067][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.content"
biodb.TRACE[2025-08-30 16:04:06.072][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.request"
biodb.TRACE[2025-08-30 16:04:06.075][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51744.xml"
biodb.DEBUG[2025-08-30 16:04:06.077][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:06.079][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:06.080][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:06.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:06.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:06.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:06.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:06.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:06.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:06.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:06.097][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.098][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.107][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:06.109][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:06.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.113][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:06.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:06.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.118][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:06.119][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:06.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.123][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:06.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:06.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:06.130][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:06.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.132][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:06.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:06.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.139][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:06.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:06.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.143][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:06.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:06.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.150][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:06.151][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:06.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.156][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:06.158][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.160][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.162][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:06.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.167][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.169][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:06.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.179][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:06.181][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:06.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.183][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:06.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:06.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.190][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:06.192][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:06.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.196][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:06.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:06.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.201][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:06.202][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:06.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.206][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:06.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:06.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:06.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:06.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:06.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:06.261][self$createEntryFromContent] Accession numbers: 51744.
biodb.TRACE[2025-08-30 16:04:06.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:06.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:06.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:06.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:06.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:06.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:06.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:06.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:06.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:06.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:06.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:06.292][private$loadEntries] Creating entries from ids [1]: "64473".
biodb.DEBUG[2025-08-30 16:04:06.293][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:06.295][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64473".
biodb.TRACE[2025-08-30 16:04:06.297][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:06.298][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:06.299][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:06.301][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:06.302][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:06.303][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:06.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:06.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:06.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:06.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:06.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:06.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:06.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:06.321][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.DEBUG[2025-08-30 16:04:06.324][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:06.326][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:06.327][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.TRACE[2025-08-30 16:04:06.702][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473).
biodb.DEBUG[2025-08-30 16:04:07.083][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:07.102][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.content"
biodb.TRACE[2025-08-30 16:04:07.107][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.request"
biodb.TRACE[2025-08-30 16:04:07.111][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64473.xml"
biodb.DEBUG[2025-08-30 16:04:07.113][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:07.115][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:07.116][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:07.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:07.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:07.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:07.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:07.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:07.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:07.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:07.133][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.135][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.137][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.144][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:07.145][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:07.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.147][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.149][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:07.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:07.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.162][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:07.163][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:07.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.165][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.167][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:07.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:07.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.172][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:07.173][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:07.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.176][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:07.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:07.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.182][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:07.184][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:07.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.187][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:07.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:07.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.193][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:07.194][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:07.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.198][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:07.199][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.203][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:07.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.209][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.210][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:07.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.219][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:07.221][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:07.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.225][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:07.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:07.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.230][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:07.231][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:07.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.235][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:07.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:07.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.240][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:07.242][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:07.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.244][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.246][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:07.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:07.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:07.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:07.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:07.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:07.307][self$createEntryFromContent] Accession numbers: 64473.
biodb.TRACE[2025-08-30 16:04:07.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:07.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:07.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:07.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:07.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:07.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:07.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:07.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:07.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:07.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:07.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:07.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:07.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:07.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:07.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:07.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:07.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:07.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:07.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:07.388][private$loadEntries] Creating entries from ids [1]: "75244".
biodb.DEBUG[2025-08-30 16:04:07.390][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:07.392][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75244".
biodb.TRACE[2025-08-30 16:04:07.394][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:07.396][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:07.397][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:07.398][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:07.400][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:07.401][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:07.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:07.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:07.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:07.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:07.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:07.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:07.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:07.423][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.DEBUG[2025-08-30 16:04:07.429][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:07.430][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:07.432][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.TRACE[2025-08-30 16:04:07.809][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244).
biodb.DEBUG[2025-08-30 16:04:08.196][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:08.239][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.content"
biodb.TRACE[2025-08-30 16:04:08.244][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.request"
biodb.TRACE[2025-08-30 16:04:08.248][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75244.xml"
biodb.DEBUG[2025-08-30 16:04:08.250][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:08.252][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:08.253][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:08.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:08.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:08.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:08.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:08.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:08.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:08.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:08.270][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.271][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.281][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:08.282][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:08.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.286][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:08.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:08.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.291][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:08.293][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:08.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.295][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:08.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:08.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.301][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:08.303][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:08.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.305][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:08.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:08.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.312][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:08.313][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:08.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:08.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:08.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.322][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:08.323][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:08.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:08.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:08.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.333][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:08.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.336][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.338][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:08.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.343][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.344][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.347][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:08.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.353][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:08.355][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:08.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:08.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:08.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.364][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:08.365][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:08.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.369][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:08.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:08.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.374][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:08.376][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:08.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.379][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:08.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:08.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:08.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:08.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:08.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:08.452][self$createEntryFromContent] Accession numbers: 75244.
biodb.TRACE[2025-08-30 16:04:08.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:08.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:08.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:08.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:08.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:08.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:08.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:08.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:08.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:08.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:08.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:08.481][private$loadEntries] Creating entries from ids [1]: "75311".
biodb.DEBUG[2025-08-30 16:04:08.482][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:08.484][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75311".
biodb.TRACE[2025-08-30 16:04:08.486][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:08.487][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:08.488][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:08.489][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:08.491][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:08.492][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:08.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:08.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:08.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:08.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:08.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:08.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:08.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:08.509][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.DEBUG[2025-08-30 16:04:08.512][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:08.513][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:08.515][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.TRACE[2025-08-30 16:04:08.889][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311).
biodb.DEBUG[2025-08-30 16:04:09.271][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:09.273][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.content"
biodb.TRACE[2025-08-30 16:04:09.278][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.request"
biodb.TRACE[2025-08-30 16:04:09.284][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75311.xml"
biodb.DEBUG[2025-08-30 16:04:09.298][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:09.300][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:09.301][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:09.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:09.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:09.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:09.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:09.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:09.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:09.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:09.319][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.320][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.330][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:09.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:09.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.333][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.335][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:09.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:09.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.340][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:09.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:09.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.344][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:09.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:09.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.351][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:09.352][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:09.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:09.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:09.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:09.362][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:09.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.366][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:09.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:09.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.371][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:09.373][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:09.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.377][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:09.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:09.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.382][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:09.383][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.387][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:09.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.394][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.397][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:09.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.403][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:09.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:09.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:09.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:09.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.414][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:09.416][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:09.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.419][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:09.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:09.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.425][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:09.426][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:09.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.430][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:09.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:09.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:09.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:09.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:09.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:09.486][self$createEntryFromContent] Accession numbers: 75311.
biodb.TRACE[2025-08-30 16:04:09.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:09.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:09.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:09.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:09.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:09.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:09.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:09.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:09.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:09.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:09.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:09.517][private$loadEntries] Creating entries from ids [1]: "75350".
biodb.DEBUG[2025-08-30 16:04:09.518][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:09.520][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75350".
biodb.TRACE[2025-08-30 16:04:09.522][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:09.523][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:09.525][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:09.526][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:09.527][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:09.528][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:09.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:09.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:09.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:09.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:09.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:09.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:09.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:09.546][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.DEBUG[2025-08-30 16:04:09.549][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:09.551][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:09.552][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.TRACE[2025-08-30 16:04:09.926][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350).
biodb.DEBUG[2025-08-30 16:04:10.301][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:10.304][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.content"
biodb.TRACE[2025-08-30 16:04:10.309][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.request"
biodb.TRACE[2025-08-30 16:04:10.313][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75350.xml"
biodb.DEBUG[2025-08-30 16:04:10.315][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:10.316][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:10.318][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:10.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:10.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:10.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:10.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:10.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:10.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:10.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:10.334][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.336][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.338][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.344][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:10.346][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:10.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.361][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:10.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:10.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.367][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:10.368][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:10.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.372][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:10.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:10.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.377][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:10.378][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:10.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:10.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:10.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.388][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:10.389][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:10.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:10.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:10.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.398][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:10.400][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:10.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.403][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:10.405][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.445][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:10.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.450][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.451][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:10.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.460][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:10.462][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:10.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:10.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:10.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.471][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:10.472][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:10.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.476][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:10.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:10.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.481][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:10.483][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:10.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.487][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:10.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:10.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:10.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:10.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:10.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:10.545][self$createEntryFromContent] Accession numbers: 75350.
biodb.TRACE[2025-08-30 16:04:10.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:10.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:10.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:10.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:10.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:10.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:10.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:10.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:10.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:10.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:10.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:10.575][private$loadEntries] Creating entries from ids [1]: "87236".
biodb.DEBUG[2025-08-30 16:04:10.576][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:10.578][cch$loadFileContent] Trying to load 1 files from cache: [1]: "87236".
biodb.TRACE[2025-08-30 16:04:10.587][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:10.588][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:10.590][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:10.591][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:10.592][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:10.594][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:10.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:10.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:10.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:10.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:10.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:10.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:10.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:10.610][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.DEBUG[2025-08-30 16:04:10.614][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:10.616][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:10.617][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.TRACE[2025-08-30 16:04:10.992][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236).
biodb.DEBUG[2025-08-30 16:04:11.367][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:11.370][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.content"
biodb.TRACE[2025-08-30 16:04:11.374][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.request"
biodb.TRACE[2025-08-30 16:04:11.377][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/87236.xml"
biodb.DEBUG[2025-08-30 16:04:11.379][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:11.381][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:11.382][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:11.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:11.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:11.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:11.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:11.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:11.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:11.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:11.399][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.400][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.409][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:11.410][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:11.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:11.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:11.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.419][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:11.420][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:11.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.424][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:11.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:11.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.429][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:11.431][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:11.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:11.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:11.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.440][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:11.441][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:11.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.444][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.445][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:11.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:11.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.451][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:11.452][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:11.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.456][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:11.457][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.460][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.462][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:11.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.467][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.468][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.471][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:11.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.477][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:11.479][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:11.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:11.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:11.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.488][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:11.490][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:11.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.493][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:11.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:11.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.499][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:11.500][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:11.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.504][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:11.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:11.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:11.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:11.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:11.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:11.560][self$createEntryFromContent] Accession numbers: 87236.
biodb.TRACE[2025-08-30 16:04:11.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:11.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:11.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:11.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:11.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:11.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:11.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:11.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:11.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:11.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:11.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:11.600][private$loadEntries] Creating entries from ids [1]: "132193".
biodb.DEBUG[2025-08-30 16:04:11.601][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:11.603][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132193".
biodb.TRACE[2025-08-30 16:04:11.605][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:11.606][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:11.607][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:11.609][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:11.610][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:11.611][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:11.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:11.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:11.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:11.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:11.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:11.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:11.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:11.628][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.DEBUG[2025-08-30 16:04:11.632][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:11.633][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:11.635][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.TRACE[2025-08-30 16:04:12.008][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193).
biodb.DEBUG[2025-08-30 16:04:12.388][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:12.391][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.content"
biodb.TRACE[2025-08-30 16:04:12.395][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.request"
biodb.TRACE[2025-08-30 16:04:12.398][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132193.xml"
biodb.DEBUG[2025-08-30 16:04:12.401][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:12.402][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:12.404][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:12.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:12.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:12.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:12.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:12.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:12.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:12.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:12.421][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.423][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.432][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:12.433][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:12.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.437][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:12.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:12.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.442][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:12.444][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:12.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.446][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.448][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:12.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:12.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:12.454][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:12.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:12.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:12.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.464][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.465][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.467][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.469][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:12.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.474][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:12.476][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:12.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.480][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:12.481][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.484][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.485][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:12.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.491][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.492][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:12.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.502][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:12.503][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:12.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:12.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:12.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.513][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:12.514][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:12.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.518][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:12.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:12.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.523][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:12.525][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:12.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.529][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:12.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:12.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:12.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:12.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:12.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:12.588][self$createEntryFromContent] Accession numbers: 132193.
biodb.TRACE[2025-08-30 16:04:12.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:12.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:12.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:12.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:12.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:12.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:12.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:12.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:12.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:12.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:12.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:12.618][private$loadEntries] Creating entries from ids [1]: "146002".
biodb.DEBUG[2025-08-30 16:04:12.619][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:12.621][cch$loadFileContent] Trying to load 1 files from cache: [1]: "146002".
biodb.TRACE[2025-08-30 16:04:12.623][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:12.624][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:12.625][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:12.627][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:12.628][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:12.629][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:12.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:12.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:12.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:12.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:12.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:12.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:12.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:12.646][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.DEBUG[2025-08-30 16:04:12.649][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:12.650][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:12.652][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.TRACE[2025-08-30 16:04:13.024][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002).
biodb.DEBUG[2025-08-30 16:04:13.405][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:13.407][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.content"
biodb.TRACE[2025-08-30 16:04:13.421][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.request"
biodb.TRACE[2025-08-30 16:04:13.424][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/146002.xml"
biodb.DEBUG[2025-08-30 16:04:13.426][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:13.428][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:13.429][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:13.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:13.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:13.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:13.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:13.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:13.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:13.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:13.447][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.448][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.457][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:13.458][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:13.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.462][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:13.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:13.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.467][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:13.468][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:13.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.471][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.472][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:13.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:13.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.477][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:13.479][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:13.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:13.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:13.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.487][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:13.489][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:13.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:13.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:13.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.498][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:13.499][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:13.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.503][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:13.504][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.508][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:13.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.513][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.514][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.517][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:13.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.523][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:13.524][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:13.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:13.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:13.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.534][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:13.535][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:13.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.550][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:13.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:13.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.556][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:13.557][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:13.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.560][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.561][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:13.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:13.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:13.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:13.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:13.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:13.617][self$createEntryFromContent] Accession numbers: 146002.
biodb.TRACE[2025-08-30 16:04:13.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:13.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:13.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:13.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:13.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:13.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:13.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:13.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:13.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:13.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:13.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:13.648][private$loadEntries] Creating entries from ids [1]: "65641".
biodb.DEBUG[2025-08-30 16:04:13.650][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:13.652][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65641".
biodb.TRACE[2025-08-30 16:04:13.653][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:13.655][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:13.656][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:13.658][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:13.659][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:13.660][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:13.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:13.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:13.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:13.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:13.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:13.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:13.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:13.677][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.DEBUG[2025-08-30 16:04:13.681][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:13.682][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:13.684][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.TRACE[2025-08-30 16:04:14.061][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641).
biodb.DEBUG[2025-08-30 16:04:14.440][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:14.443][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.content"
biodb.TRACE[2025-08-30 16:04:14.448][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.request"
biodb.TRACE[2025-08-30 16:04:14.452][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65641.xml"
biodb.DEBUG[2025-08-30 16:04:14.454][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:14.455][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:14.457][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:14.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:14.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:14.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:14.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:14.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:14.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:14.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:14.474][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.482][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.484][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.491][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:14.492][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:14.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.496][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:14.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:14.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.502][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:14.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:14.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.507][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:14.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:14.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:14.514][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:14.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:14.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:14.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.523][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:14.524][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:14.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:14.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:14.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.534][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:14.535][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:14.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.539][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:14.540][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:14.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.544][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:14.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:14.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.550][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:14.552][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:14.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:14.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:14.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.561][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:14.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:14.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:14.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:14.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.571][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:14.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:14.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.577][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:14.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:14.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.582][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:14.583][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:14.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:14.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:14.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:14.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:14.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:14.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:14.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:14.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:14.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:14.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:14.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:14.644][self$createEntryFromContent] Accession numbers: 65641.
biodb.TRACE[2025-08-30 16:04:14.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:14.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:14.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:14.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:14.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:14.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:14.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:14.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:14.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:14.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:14.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:14.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:14.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:14.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:14.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:14.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:14.676][private$loadEntries] Creating entries from ids [1]: "144071".
biodb.DEBUG[2025-08-30 16:04:14.678][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:14.680][cch$loadFileContent] Trying to load 1 files from cache: [1]: "144071".
biodb.TRACE[2025-08-30 16:04:14.681][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:14.683][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:14.684][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:14.686][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:14.687][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:14.688][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:14.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:14.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:14.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:14.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:14.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:14.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:14.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:14.706][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.DEBUG[2025-08-30 16:04:14.709][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:14.710][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:14.712][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.TRACE[2025-08-30 16:04:15.085][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071).
biodb.DEBUG[2025-08-30 16:04:15.464][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:15.466][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.content"
biodb.TRACE[2025-08-30 16:04:15.471][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.request"
biodb.TRACE[2025-08-30 16:04:15.474][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/144071.xml"
biodb.DEBUG[2025-08-30 16:04:15.476][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:15.478][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:15.510][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:15.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:15.527][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.528][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.550][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:15.552][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:15.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.556][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:15.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:15.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.561][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:15.562][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:15.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:15.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:15.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.572][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:15.573][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:15.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:15.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:15.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.582][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:15.584][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:15.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.587][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:15.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:15.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.594][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:15.595][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:15.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.599][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:15.601][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.605][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:15.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.611][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.613][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:15.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.622][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:15.624][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:15.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.626][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:15.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:15.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.633][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:15.635][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:15.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.637][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.639][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:15.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:15.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.644][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:15.645][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:15.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.648][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.656][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:15.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:15.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:15.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:15.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.713][self$createEntryFromContent] Accession numbers: 144071.
biodb.TRACE[2025-08-30 16:04:15.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:15.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:15.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:15.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:15.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:15.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:15.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:15.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:15.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:15.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:15.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:15.919][private$loadEntries] Creating entries from ids [1]: "168650".
biodb.DEBUG[2025-08-30 16:04:15.921][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:15.922][cch$loadFileContent] Trying to load 1 files from cache: [1]: "168650".
biodb.TRACE[2025-08-30 16:04:15.924][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:15.925][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:15.927][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:15.928][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:15.929][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:15.930][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:15.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:15.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:15.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:15.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:15.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:15.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:15.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:15.947][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.DEBUG[2025-08-30 16:04:15.950][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:15.951][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:15.953][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.TRACE[2025-08-30 16:04:16.326][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650).
biodb.DEBUG[2025-08-30 16:04:16.701][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:16.704][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.content"
biodb.TRACE[2025-08-30 16:04:16.709][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.request"
biodb.TRACE[2025-08-30 16:04:16.712][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/168650.xml"
biodb.DEBUG[2025-08-30 16:04:16.714][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:16.716][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:16.717][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:16.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:16.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:16.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:16.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:16.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:16.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:16.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:16.734][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.736][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.756][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:16.757][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:16.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.761][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:16.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:16.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.766][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:16.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:16.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.772][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:16.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:16.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.777][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:16.778][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:16.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.782][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:16.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:16.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.787][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:16.789][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:16.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:16.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:16.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.798][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:16.799][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:16.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.803][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:16.804][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.809][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:16.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.814][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.815][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:16.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.824][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:16.826][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:16.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.828][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.830][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:16.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:16.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.835][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:16.836][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:16.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.840][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:16.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:16.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.845][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:16.847][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:16.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.851][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:16.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:16.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:16.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:16.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:16.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:16.908][self$createEntryFromContent] Accession numbers: 168650.
biodb.TRACE[2025-08-30 16:04:16.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:16.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:16.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:16.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:16.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:16.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:16.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:16.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:16.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:16.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:16.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:16.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:16.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:16.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:16.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:16.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:16.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:16.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:16.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:16.968][private$loadEntries] Creating entries from ids [1]: "169305".
biodb.DEBUG[2025-08-30 16:04:16.972][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:16.974][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169305".
biodb.TRACE[2025-08-30 16:04:16.976][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:16.977][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:16.978][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:16.980][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:16.981][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:16.982][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:16.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:16.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:16.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:16.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:16.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:16.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:16.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:16.999][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.DEBUG[2025-08-30 16:04:17.003][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:17.004][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:17.006][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.TRACE[2025-08-30 16:04:17.383][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305).
biodb.DEBUG[2025-08-30 16:04:17.756][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:17.759][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.content"
biodb.TRACE[2025-08-30 16:04:17.764][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.request"
biodb.TRACE[2025-08-30 16:04:17.768][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169305.xml"
biodb.DEBUG[2025-08-30 16:04:17.771][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:17.772][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:17.774][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:17.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:17.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:17.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:17.795][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:17.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:17.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:17.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:17.801][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.803][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.812][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:17.813][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:17.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.817][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:17.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:17.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.822][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:17.823][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:17.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.828][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:17.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:17.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.833][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:17.834][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:17.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:17.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:17.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.843][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.845][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.848][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:17.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.853][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:17.855][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:17.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.857][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.859][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:17.860][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.864][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:17.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.870][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.872][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:17.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.881][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:17.883][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:17.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:17.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:17.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.892][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:17.893][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:17.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.896][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.898][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:17.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:17.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.903][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:17.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:17.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.907][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:17.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:17.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:17.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:17.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:17.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:17.975][self$createEntryFromContent] Accession numbers: 169305.
biodb.TRACE[2025-08-30 16:04:17.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:17.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:17.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:17.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:17.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:17.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:17.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:18.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:18.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:18.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:18.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:18.005][private$loadEntries] Creating entries from ids [1]: "176869".
biodb.DEBUG[2025-08-30 16:04:18.006][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:18.008][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176869".
biodb.TRACE[2025-08-30 16:04:18.010][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:18.011][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:18.013][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:18.014][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:18.015][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:18.017][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:18.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:18.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:18.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:18.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:18.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:18.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:18.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:18.034][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.DEBUG[2025-08-30 16:04:18.037][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:18.039][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:18.040][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.TRACE[2025-08-30 16:04:18.412][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869).
biodb.DEBUG[2025-08-30 16:04:18.788][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:18.790][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.content"
biodb.TRACE[2025-08-30 16:04:18.822][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.request"
biodb.TRACE[2025-08-30 16:04:18.835][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176869.xml"
biodb.DEBUG[2025-08-30 16:04:18.837][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:18.838][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:18.840][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:18.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:18.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:18.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:18.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:18.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:18.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:18.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:18.856][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.857][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.866][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:18.867][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:18.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.871][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:18.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:18.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.876][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:18.878][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:18.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.882][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:18.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:18.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.887][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:18.888][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:18.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:18.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:18.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.897][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:18.898][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:18.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:18.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:18.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.907][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:18.909][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:18.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.913][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:18.914][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:18.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.918][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:18.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:18.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.923][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.924][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:18.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.934][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:18.935][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:18.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:18.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:18.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.945][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:18.946][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:18.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.948][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.950][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:18.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:18.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.955][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:18.956][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:18.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.960][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:18.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:18.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:18.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:18.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:18.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:18.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:18.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:19.016][self$createEntryFromContent] Accession numbers: 176869.
biodb.TRACE[2025-08-30 16:04:19.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:19.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:19.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:19.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:19.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:19.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:19.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:19.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:19.047][private$loadEntries] Creating entries from ids [1]: "185696".
biodb.DEBUG[2025-08-30 16:04:19.048][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:19.050][cch$loadFileContent] Trying to load 1 files from cache: [1]: "185696".
biodb.TRACE[2025-08-30 16:04:19.052][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:19.053][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:19.055][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:19.056][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:19.057][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:19.059][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:19.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:19.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:19.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:19.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:19.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:19.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:19.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:19.076][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.DEBUG[2025-08-30 16:04:19.079][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:19.080][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:19.082][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.TRACE[2025-08-30 16:04:19.455][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696).
biodb.DEBUG[2025-08-30 16:04:19.833][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:19.835][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.content"
biodb.TRACE[2025-08-30 16:04:19.840][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.request"
biodb.TRACE[2025-08-30 16:04:19.843][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/185696.xml"
biodb.DEBUG[2025-08-30 16:04:19.845][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:19.846][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:19.848][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:19.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:19.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:19.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:19.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:19.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:19.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:19.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:19.865][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.866][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:19.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:19.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.876][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:19.877][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:19.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.881][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:19.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:19.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.886][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:19.888][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:19.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.892][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:19.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:19.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.897][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:19.898][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:19.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:19.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:19.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.908][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:19.909][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:19.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:19.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:19.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.931][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:19.933][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:19.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.937][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:19.938][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.942][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:19.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:19.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.947][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.949][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:19.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.957][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:19.959][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:19.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:19.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:19.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.975][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:19.977][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:19.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.980][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:19.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:19.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.985][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:19.987][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:19.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:19.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:19.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:19.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:19.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:19.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:19.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:20.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:20.046][self$createEntryFromContent] Accession numbers: 185696.
biodb.TRACE[2025-08-30 16:04:20.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:20.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:20.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:20.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:20.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:20.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:20.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:20.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:20.076][private$loadEntries] Creating entries from ids [1]: "190762".
biodb.DEBUG[2025-08-30 16:04:20.077][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:20.080][cch$loadFileContent] Trying to load 1 files from cache: [1]: "190762".
biodb.TRACE[2025-08-30 16:04:20.081][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:20.083][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:20.084][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:20.085][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:20.087][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:20.088][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:20.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:20.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:20.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:20.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:20.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:20.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:20.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:20.106][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.DEBUG[2025-08-30 16:04:20.110][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:20.111][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:20.113][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.TRACE[2025-08-30 16:04:20.486][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762).
biodb.DEBUG[2025-08-30 16:04:20.862][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:20.864][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.content"
biodb.TRACE[2025-08-30 16:04:20.869][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.request"
biodb.TRACE[2025-08-30 16:04:20.873][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/190762.xml"
biodb.DEBUG[2025-08-30 16:04:20.875][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:20.877][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:20.878][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:20.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:20.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:20.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:20.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:20.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:20.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:20.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:20.895][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.897][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:20.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:20.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.906][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:20.908][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:20.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:20.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:20.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.924][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:20.926][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:20.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.928][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.930][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:20.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:20.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.935][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:20.937][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:20.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:20.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:20.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.946][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:20.948][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:20.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:20.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:20.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.957][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:20.959][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:20.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.963][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:20.964][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.968][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:20.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:20.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.974][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.975][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:20.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.984][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:20.986][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:20.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:20.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:20.995][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:20.997][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:20.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:20.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:21.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:21.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.005][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:21.007][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:21.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.011][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:21.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:21.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:21.066][self$createEntryFromContent] Accession numbers: 190762.
biodb.TRACE[2025-08-30 16:04:21.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:21.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:21.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:21.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:21.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:21.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:21.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:21.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:21.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:21.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:21.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:21.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:21.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:21.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:21.097][private$loadEntries] Creating entries from ids [1]: "193176".
biodb.DEBUG[2025-08-30 16:04:21.099][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:21.101][cch$loadFileContent] Trying to load 1 files from cache: [1]: "193176".
biodb.TRACE[2025-08-30 16:04:21.102][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:21.103][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:21.105][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:21.106][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:21.107][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:21.109][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:21.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:21.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:21.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:21.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:21.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:21.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:21.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:21.136][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.DEBUG[2025-08-30 16:04:21.140][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:21.141][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:21.143][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.TRACE[2025-08-30 16:04:21.516][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176).
biodb.DEBUG[2025-08-30 16:04:21.887][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:21.890][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.content"
biodb.TRACE[2025-08-30 16:04:21.895][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.request"
biodb.TRACE[2025-08-30 16:04:21.898][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/193176.xml"
biodb.DEBUG[2025-08-30 16:04:21.900][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:21.902][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:21.903][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:21.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:21.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:21.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:21.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:21.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:21.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:21.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:21.921][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.922][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.924][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:21.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:21.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.931][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:21.933][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:21.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:21.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:21.936][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:21.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:21.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.089][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:22.091][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:22.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:22.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:22.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.100][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:22.102][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:22.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:22.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:22.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.111][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:22.113][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:22.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:22.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:22.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.122][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:22.123][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:22.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.126][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.127][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:22.128][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.132][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:22.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.137][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:22.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.148][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:22.149][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:22.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:22.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:22.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.158][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:22.159][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:22.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.163][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:22.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:22.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.168][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:22.170][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:22.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.174][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:22.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:22.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:22.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:22.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:22.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:22.232][self$createEntryFromContent] Accession numbers: 193176.
biodb.TRACE[2025-08-30 16:04:22.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:22.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:22.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:22.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:22.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:22.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:22.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:22.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:22.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:22.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:22.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:22.262][private$loadEntries] Creating entries from ids [1]: "196395".
biodb.DEBUG[2025-08-30 16:04:22.263][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:22.265][cch$loadFileContent] Trying to load 1 files from cache: [1]: "196395".
biodb.TRACE[2025-08-30 16:04:22.267][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:22.268][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:22.269][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:22.271][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:22.272][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:22.273][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:22.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:22.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:22.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:22.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:22.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:22.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:22.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:22.290][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.DEBUG[2025-08-30 16:04:22.293][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:22.295][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:22.296][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.TRACE[2025-08-30 16:04:22.669][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395).
biodb.DEBUG[2025-08-30 16:04:23.042][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:23.044][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.content"
biodb.TRACE[2025-08-30 16:04:23.070][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.request"
biodb.TRACE[2025-08-30 16:04:23.073][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/196395.xml"
biodb.DEBUG[2025-08-30 16:04:23.075][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:23.077][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:23.078][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:23.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.095][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.097][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.106][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:23.108][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:23.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.110][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.112][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:23.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:23.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.117][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:23.118][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:23.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.120][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.122][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:23.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:23.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:23.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:23.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:23.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:23.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.138][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:23.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:23.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.142][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:23.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:23.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.149][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:23.151][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:23.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.155][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:23.156][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.160][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:23.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.165][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.166][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:23.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.175][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:23.177][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:23.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:23.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.187][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:23.188][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:23.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.192][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:23.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:23.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.198][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:23.199][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:23.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.203][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:23.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:23.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:23.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.274][self$createEntryFromContent] Accession numbers: 196395.
biodb.TRACE[2025-08-30 16:04:23.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.319][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:23.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.345][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.346][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:23.347][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:23.349][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:23.350][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.353][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.356][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.357][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.361][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.362][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.365][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.369][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:23.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.385][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:04:23.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.412][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.413][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:23.414][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:23.415][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:23.417][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.418][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.419][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.423][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.424][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.428][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.429][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.430][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.432][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.436][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:23.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.453][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:04:23.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.479][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.481][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:23.482][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:23.483][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:23.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.494][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.496][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.497][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.498][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.503][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:23.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.520][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:04:23.522][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:23.523][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:23.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:23.567][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:23.572][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:23.574][cch$loadFileContent] Trying to load 1 files from cache: [1]: "ebf8c17fa19fb0caf99d83ca8441a2ac".
biodb.TRACE[2025-08-30 16:04:23.575][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:23.577][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content".
biodb.DEBUG[2025-08-30 16:04:23.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:23.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:23.727][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:23.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.754][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:23.755][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:23.756][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:23.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.761][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.770][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.825][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:23.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.842][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:04:23.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.868][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.869][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:23.871][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:23.872][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:23.874][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.877][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.881][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.882][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.887][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.890][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.892][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.894][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:23.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.910][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2025-08-30 16:04:23.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:23.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:23.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:23.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:23.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:23.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:23.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:23.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.937][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:23.938][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:23.939][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:23.940][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:23.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:23.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:23.947][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:23.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.007][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.010][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.012][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.014][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.117][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2025-08-30 16:04:24.118][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:24.119][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:24.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:24.147][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:24.151][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:24.153][cch$loadFileContent] Trying to load 1 files from cache: [1]: "152225e020c3e5947a0f5a90f021cee7".
biodb.TRACE[2025-08-30 16:04:24.156][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:24.158][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content".
biodb.DEBUG[2025-08-30 16:04:24.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.376][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:24.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.401][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.403][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.404][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.405][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.406][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.408][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.409][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.413][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.414][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.418][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.419][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.420][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.422][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.425][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.442][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2025-08-30 16:04:24.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.467][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.468][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.469][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.470][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.478][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.479][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.483][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.484][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.490][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.507][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2025-08-30 16:04:24.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.532][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.533][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.534][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.536][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.539][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.548][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.550][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.556][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.573][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2025-08-30 16:04:24.574][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:24.575][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:24.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:24.593][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:24.597][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:24.599][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9686ce9c957a368dd8f5b4cc9c5b15b3".
biodb.TRACE[2025-08-30 16:04:24.600][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:24.602][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content".
biodb.DEBUG[2025-08-30 16:04:24.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.662][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:24.666][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:24.668][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5d833e77a1be58060d0c3916a1e1b293".
biodb.TRACE[2025-08-30 16:04:24.670][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:24.671][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content".
biodb.DEBUG[2025-08-30 16:04:24.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:24.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:24.801][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:24.803][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.833][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.835][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.836][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.837][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.838][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.839][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.841][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.844][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.846][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.851][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.852][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.857][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.874][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2025-08-30 16:04:24.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.901][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.902][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.903][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.904][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.906][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.908][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.916][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.921][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.928][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.929][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.946][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2025-08-30 16:04:24.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:24.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:24.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:24.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:24.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:24.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:24.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:24.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.971][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.972][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:24.974][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:24.975][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:24.976][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.977][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.982][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.984][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.987][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.989][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:24.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:24.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:24.995][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:24.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:24.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.012][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2025-08-30 16:04:25.013][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:25.014][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:25.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:25.060][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.064][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.066][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:04:25.067][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.069][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:04:25.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.073][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.081][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.102][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.106][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.108][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:04:25.110][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.112][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:04:25.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.176][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:25.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.203][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.204][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.205][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.207][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.208][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.213][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.216][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.218][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.221][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.227][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.245][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-30 16:04:25.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.284][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.285][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.286][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.288][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.289][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.294][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.299][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.300][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.301][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.303][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.305][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.306][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.324][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:04:25.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.350][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.351][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.352][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.353][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.355][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.356][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.357][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.359][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.361][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.362][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.364][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.366][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.367][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.368][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.369][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.373][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.389][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-30 16:04:25.390][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:25.392][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:25.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:25.410][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.414][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.416][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:04:25.420][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.422][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:04:25.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.487][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.557][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.558][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:04:25.560][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.562][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:04:25.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.590][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.656][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:25.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.681][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.682][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.683][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.684][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.685][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.688][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.695][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.698][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.701][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.704][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.721][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:25.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.747][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.748][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.749][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.750][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.753][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.754][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.762][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.764][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.769][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.770][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.794][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:04:25.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.829][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.831][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:25.832][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:25.833][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:25.834][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.836][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.837][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.840][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.845][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.847][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:25.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.853][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:25.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:25.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.869][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:04:25.870][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:25.871][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:25.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:25.901][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:25.905][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:25.907][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:04:25.909][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:25.911][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:04:25.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:25.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:25.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:25.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:25.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:25.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:25.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:25.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:25.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:25.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:25.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:25.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.150][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:26.155][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:26.156][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:04:26.158][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:26.160][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:04:26.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.249][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:26.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.283][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.284][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.285][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.288][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.297][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.299][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.301][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.302][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.306][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.307][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.313][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.330][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:04:26.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.355][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.356][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.357][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.358][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.360][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.361][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.362][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.366][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.367][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.372][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.373][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.379][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.395][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:04:26.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.420][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.421][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.422][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.424][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.425][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.426][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.428][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.432][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.433][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.437][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.438][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.439][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.440][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.444][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.461][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:04:26.463][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:26.464][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:26.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:26.510][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:26.514][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:26.516][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2b6f29bb7a7663ff23fb5e7dcae5c27f".
biodb.TRACE[2025-08-30 16:04:26.517][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:26.519][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content".
biodb.DEBUG[2025-08-30 16:04:26.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.677][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.697][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:26.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.731][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.732][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.733][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.741][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.743][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.745][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.746][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.747][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.749][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.750][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.752][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.754][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.782][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:04:26.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.808][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.810][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.811][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.812][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.813][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.819][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.826][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.829][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.831][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.833][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.850][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2025-08-30 16:04:26.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.875][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.876][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:26.877][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:26.879][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:26.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.881][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.882][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.886][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.887][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.892][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:26.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.897][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.898][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:26.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:26.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.915][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2025-08-30 16:04:26.916][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:26.918][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:26.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:26.936][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:26.940][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:26.942][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9a13652ab89a613a3b0e10d3b6cb10a0".
biodb.TRACE[2025-08-30 16:04:26.943][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:26.945][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content".
biodb.DEBUG[2025-08-30 16:04:26.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:26.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:26.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:26.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:26.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:26.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:26.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:26.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:26.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:26.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:26.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:26.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.112][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:27.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.139][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.140][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.141][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.142][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.143][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.145][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.146][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.157][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.158][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.163][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.180][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:27.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.205][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.207][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.208][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.209][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.210][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.213][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.223][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.224][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.226][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.237][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.256][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:04:27.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.283][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:27.284][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:27.286][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:27.287][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.288][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.303][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.304][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.307][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.308][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.309][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:27.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.312][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.314][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.315][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:27.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:27.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.332][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2025-08-30 16:04:27.333][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:27.334][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:27.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:27.367][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:27.371][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:27.373][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a985300ab8a01d49254fbf993ad91279".
biodb.TRACE[2025-08-30 16:04:27.374][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:27.376][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content".
biodb.DEBUG[2025-08-30 16:04:27.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:27.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:27.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:27.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:27.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:27.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:27.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:27.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:27.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:27.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:27.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:27.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:28.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.235][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:28.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.261][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.262][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:28.264][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:28.265][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:28.266][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.277][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.287][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.289][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.292][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.294][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:28.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.310][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:04:28.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.381][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.382][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:28.383][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:28.384][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:28.386][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.387][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.391][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.397][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.398][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.405][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:28.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.421][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2025-08-30 16:04:28.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:28.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.448][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:28.449][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:28.450][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:28.451][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.453][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.454][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.456][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.462][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.464][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:28.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.470][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:28.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:28.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.487][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2025-08-30 16:04:28.488][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:28.490][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:04:28.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:28.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:28.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:28.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:28.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:28.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:28.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:28.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:28.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:28.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:28.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:28.597][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:28.601][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:28.603][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:28.605][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:04:28.985][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:04:29.480][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:29.482][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content"
biodb.TRACE[2025-08-30 16:04:29.488][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.request"
biodb.DEBUG[2025-08-30 16:04:29.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:29.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:29.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:29.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:29.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:29.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:29.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:29.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:29.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:29.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:29.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:29.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:29.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:29.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:29.686][private$loadEntries] Creating entries from ids [1]: "9442".
biodb.DEBUG[2025-08-30 16:04:29.687][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:29.690][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9442".
biodb.TRACE[2025-08-30 16:04:29.691][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:29.693][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:29.694][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:29.696][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:29.697][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:29.698][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:29.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:29.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:29.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:29.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:29.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:29.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:29.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:29.715][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.DEBUG[2025-08-30 16:04:29.719][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:29.720][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:29.722][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.TRACE[2025-08-30 16:04:30.094][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442).
biodb.DEBUG[2025-08-30 16:04:30.481][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:30.483][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.content"
biodb.TRACE[2025-08-30 16:04:30.488][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.request"
biodb.TRACE[2025-08-30 16:04:30.491][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9442.xml"
biodb.DEBUG[2025-08-30 16:04:30.493][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:30.496][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:30.497][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:30.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:30.515][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.516][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.525][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.527][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.531][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:30.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:30.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.538][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.539][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:30.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:30.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.550][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.552][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:30.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:30.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.563][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.565][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:30.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.576][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.577][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.580][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.582][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:30.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.588][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:30.590][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.594][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:30.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:30.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.601][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.602][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.611][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.613][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:30.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:30.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.622][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:30.624][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.626][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.628][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:30.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:30.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.633][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.635][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.637][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.639][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:30.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:30.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:30.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:30.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:30.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.698][self$createEntryFromContent] Accession numbers: 9442.
biodb.TRACE[2025-08-30 16:04:30.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:30.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:30.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:30.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:30.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:30.730][private$loadEntries] Creating entries from ids [1]: "34764".
biodb.DEBUG[2025-08-30 16:04:30.732][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:30.734][cch$loadFileContent] Trying to load 1 files from cache: [1]: "34764".
biodb.TRACE[2025-08-30 16:04:30.735][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:30.737][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:30.738][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:30.739][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:30.741][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:30.742][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:30.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:30.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:30.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:30.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:30.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:30.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:30.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:30.762][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.DEBUG[2025-08-30 16:04:30.767][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:30.768][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:30.771][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.TRACE[2025-08-30 16:04:31.156][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764).
biodb.DEBUG[2025-08-30 16:04:31.536][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:31.539][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.content"
biodb.TRACE[2025-08-30 16:04:31.544][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.request"
biodb.TRACE[2025-08-30 16:04:31.547][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34764.xml"
biodb.DEBUG[2025-08-30 16:04:31.549][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:31.551][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:31.552][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:31.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.568][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.570][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.578][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.580][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.582][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.584][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:31.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:31.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.589][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.590][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.592][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.594][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:31.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:31.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.599][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.600][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:31.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:31.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.610][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:31.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.631][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.635][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.636][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:31.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.642][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:31.643][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.647][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:31.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:31.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.652][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.653][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.665][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.669][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:31.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:31.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.675][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:31.676][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.680][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:31.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:31.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.685][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.687][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.690][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:31.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:31.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:31.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:31.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:31.747][self$createEntryFromContent] Accession numbers: 34764.
biodb.TRACE[2025-08-30 16:04:31.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:31.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:31.764][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:31.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.792][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:31.794][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:31.795][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:31.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.797][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.798][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.809][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.810][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.811][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.813][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.815][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:31.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.832][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:04:31.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.858][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.859][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:31.860][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:31.862][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:31.863][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.866][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.869][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.874][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.876][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.882][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:31.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.900][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:04:31.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:31.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.928][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:31.929][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:31.930][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:31.932][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.933][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.938][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.943][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.945][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:31.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.951][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:31.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:31.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:31.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:31.968][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2025-08-30 16:04:31.970][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:31.971][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:31.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:31.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:31.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:31.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:31.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:31.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:31.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:31.998][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:32.002][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:32.003][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:32.006][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:04:32.394][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:04:32.911][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:32.913][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content"
biodb.TRACE[2025-08-30 16:04:32.919][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.request"
biodb.DEBUG[2025-08-30 16:04:32.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:32.942][private$loadEntries] Creating entries from ids [1]: "2535".
biodb.DEBUG[2025-08-30 16:04:32.944][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:32.946][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2535".
biodb.TRACE[2025-08-30 16:04:32.947][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:32.949][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:32.950][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:32.951][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:32.953][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:32.954][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:32.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:32.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:32.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:32.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:32.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:32.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:32.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:32.970][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.DEBUG[2025-08-30 16:04:32.974][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:32.975][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:32.977][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.TRACE[2025-08-30 16:04:33.351][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535).
biodb.DEBUG[2025-08-30 16:04:33.732][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:33.735][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.content"
biodb.TRACE[2025-08-30 16:04:33.739][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.request"
biodb.TRACE[2025-08-30 16:04:33.743][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2535.xml"
biodb.DEBUG[2025-08-30 16:04:33.745][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:33.746][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:33.748][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:33.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:33.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:33.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:33.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:33.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:33.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:33.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:33.765][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.793][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.795][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.797][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.799][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:33.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:33.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.804][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.805][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.810][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:33.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:33.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.817][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:33.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:33.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.827][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.828][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.831][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:33.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.843][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:33.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.848][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:33.850][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.854][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:33.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:33.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.860][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.861][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.871][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.872][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:33.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:33.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.881][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:33.883][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.887][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:33.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:33.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.893][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.895][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.897][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:33.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:33.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:33.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:33.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:33.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:33.957][self$createEntryFromContent] Accession numbers: 2535.
biodb.TRACE[2025-08-30 16:04:33.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:33.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:33.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:33.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:33.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:33.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:33.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:33.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:33.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:33.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:33.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:34.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:34.016][private$loadEntries] Creating entries from ids [1]: "5525".
biodb.DEBUG[2025-08-30 16:04:34.018][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:34.020][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5525".
biodb.TRACE[2025-08-30 16:04:34.021][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:34.023][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:34.024][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:34.025][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:34.027][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:34.028][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:34.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:34.045][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.DEBUG[2025-08-30 16:04:34.048][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:34.050][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:34.051][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.TRACE[2025-08-30 16:04:34.427][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525).
biodb.DEBUG[2025-08-30 16:04:34.806][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:34.809][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.content"
biodb.TRACE[2025-08-30 16:04:34.814][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.request"
biodb.TRACE[2025-08-30 16:04:34.818][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5525.xml"
biodb.DEBUG[2025-08-30 16:04:34.847][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:34.849][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:34.851][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:34.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:34.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:34.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:34.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:34.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:34.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:34.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:34.868][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.870][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:34.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:34.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.880][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.897][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.901][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:34.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:34.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.907][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.908][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.912][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:34.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:34.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.917][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.919][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:34.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.928][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.929][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.931][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:34.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.938][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.940][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.944][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:34.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.949][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:34.950][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.953][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.954][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:34.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:34.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.959][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.961][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:34.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.970][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.971][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:34.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:34.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.981][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:34.982][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.986][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:34.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:34.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.991][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.993][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:34.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:34.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:34.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:34.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:35.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:35.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:35.054][self$createEntryFromContent] Accession numbers: 5525.
biodb.TRACE[2025-08-30 16:04:35.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:35.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:35.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:35.102][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:35.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.128][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.129][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:35.130][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:35.131][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:35.133][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.134][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.135][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.139][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.140][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.143][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.144][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.145][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.148][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.151][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.168][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2025-08-30 16:04:35.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.193][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.195][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:35.196][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:35.197][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:35.198][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.200][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.201][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.205][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.206][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.210][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.211][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.214][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.217][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:35.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.234][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:35.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:35.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.259][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.260][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:35.261][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:35.262][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:35.263][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.273][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.275][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.276][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:35.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.282][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:35.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:35.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:35.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:35.299][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:04:35.300][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:35.301][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:35.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:35.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:35.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:35.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:35.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:35.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:35.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:35.319][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:35.323][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:35.331][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:35.334][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:04:35.707][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:04:36.081][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:36.083][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content"
biodb.TRACE[2025-08-30 16:04:36.089][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.request"
biodb.DEBUG[2025-08-30 16:04:36.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:36.106][private$loadEntries] Creating entries from ids [1]: "31303".
biodb.DEBUG[2025-08-30 16:04:36.107][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:36.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "31303".
biodb.TRACE[2025-08-30 16:04:36.111][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:36.113][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:36.114][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:36.115][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:36.116][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:36.118][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:36.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:36.134][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.DEBUG[2025-08-30 16:04:36.137][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:36.139][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:36.140][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.TRACE[2025-08-30 16:04:36.513][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303).
biodb.DEBUG[2025-08-30 16:04:36.893][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:36.895][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.content"
biodb.TRACE[2025-08-30 16:04:36.900][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.request"
biodb.TRACE[2025-08-30 16:04:36.904][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/31303.xml"
biodb.DEBUG[2025-08-30 16:04:36.906][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:36.908][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:36.909][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:36.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:36.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:36.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:36.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:36.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:36.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:36.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:36.926][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.928][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:36.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:36.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.937][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.939][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.943][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:36.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:36.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.949][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.950][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.953][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:36.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:36.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:36.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:36.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.970][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.972][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:36.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.981][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.983][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:36.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.987][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:36.989][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.993][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:36.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:36.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:36.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:36.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:36.999][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.002][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.009][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.011][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:37.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:37.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.020][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:37.022][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.026][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:37.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:37.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.032][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.033][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.037][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:37.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:37.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:37.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:37.096][self$createEntryFromContent] Accession numbers: 31303.
biodb.TRACE[2025-08-30 16:04:37.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:37.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:37.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:37.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:37.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:37.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:37.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:37.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:37.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:37.128][private$loadEntries] Creating entries from ids [1]: "37118".
biodb.DEBUG[2025-08-30 16:04:37.129][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:37.131][cch$loadFileContent] Trying to load 1 files from cache: [1]: "37118".
biodb.TRACE[2025-08-30 16:04:37.133][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:37.134][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:37.136][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:37.137][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:37.138][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:37.139][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:37.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:37.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:37.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:37.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:37.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:37.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:37.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:37.156][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.DEBUG[2025-08-30 16:04:37.160][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:37.161][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:37.163][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.TRACE[2025-08-30 16:04:37.536][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118).
biodb.DEBUG[2025-08-30 16:04:37.910][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:37.913][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.content"
biodb.TRACE[2025-08-30 16:04:37.918][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.request"
biodb.TRACE[2025-08-30 16:04:37.921][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37118.xml"
biodb.DEBUG[2025-08-30 16:04:37.923][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:37.925][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:37.926][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:37.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:37.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:37.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:37.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:37.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:37.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:37.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:37.944][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.946][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:37.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:37.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.956][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.957][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.961][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:37.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:37.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.966][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.972][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:37.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:37.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.977][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.979][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:37.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:37.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.989][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.990][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:37.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:37.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:37.999][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.001][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:38.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.005][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:38.006][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.010][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:38.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:38.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.032][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.034][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.044][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.046][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.048][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.050][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:38.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:38.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.056][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:38.057][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.062][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:38.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:38.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.067][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.068][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.073][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:38.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:38.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:38.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:38.132][self$createEntryFromContent] Accession numbers: 37118.
biodb.TRACE[2025-08-30 16:04:38.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:38.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:38.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:38.163][private$loadEntries] Creating entries from ids [1]: "39424".
biodb.DEBUG[2025-08-30 16:04:38.164][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:38.166][cch$loadFileContent] Trying to load 1 files from cache: [1]: "39424".
biodb.TRACE[2025-08-30 16:04:38.168][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:38.169][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:38.171][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:38.172][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:38.174][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:38.175][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:38.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:38.193][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.DEBUG[2025-08-30 16:04:38.196][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:38.198][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:38.199][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.TRACE[2025-08-30 16:04:38.572][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424).
biodb.DEBUG[2025-08-30 16:04:38.948][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:38.951][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.content"
biodb.TRACE[2025-08-30 16:04:38.956][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.request"
biodb.TRACE[2025-08-30 16:04:38.959][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/39424.xml"
biodb.DEBUG[2025-08-30 16:04:38.961][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:38.963][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:38.964][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:38.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:38.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:38.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:38.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:38.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:38.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:38.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:38.981][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.982][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:38.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:38.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.991][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.992][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:38.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:38.997][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:38.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:38.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.002][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.004][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.006][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.008][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:39.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:39.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.014][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.015][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:39.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:39.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.024][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.025][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:39.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.035][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.036][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:39.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.040][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:39.042][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.046][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:39.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:39.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.051][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.053][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.062][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.063][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.067][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:39.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:39.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.073][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:39.074][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.078][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:39.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:39.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.084][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.085][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:39.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:39.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:39.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:39.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:39.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:39.146][self$createEntryFromContent] Accession numbers: 39424.
biodb.TRACE[2025-08-30 16:04:39.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:39.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:39.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:39.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:39.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:39.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:39.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:39.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:39.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:39.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:39.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:39.176][private$loadEntries] Creating entries from ids [1]: "81767".
biodb.DEBUG[2025-08-30 16:04:39.178][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:39.180][cch$loadFileContent] Trying to load 1 files from cache: [1]: "81767".
biodb.TRACE[2025-08-30 16:04:39.181][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:39.183][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:39.184][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:39.185][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:39.187][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:39.188][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:39.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:39.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:39.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:39.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:39.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:39.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:39.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:39.205][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.DEBUG[2025-08-30 16:04:39.209][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:39.210][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:39.212][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.TRACE[2025-08-30 16:04:39.595][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767).
biodb.DEBUG[2025-08-30 16:04:39.983][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:39.985][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.content"
biodb.TRACE[2025-08-30 16:04:39.990][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.request"
biodb.TRACE[2025-08-30 16:04:40.000][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/81767.xml"
biodb.DEBUG[2025-08-30 16:04:40.003][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:40.005][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:40.006][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:40.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.023][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.025][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.034][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.035][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.040][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:40.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:40.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.045][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.046][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.051][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:40.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:40.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.056][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.058][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.060][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:40.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:40.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.067][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.068][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:40.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.078][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.082][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.084][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:40.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.089][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:40.090][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.094][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:40.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:40.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.100][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.101][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.110][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.111][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:40.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:40.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.121][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:40.122][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.126][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:40.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:40.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.131][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.132][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.136][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:40.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:40.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:40.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:40.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.192][self$createEntryFromContent] Accession numbers: 81767.
biodb.TRACE[2025-08-30 16:04:40.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.237][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:40.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.263][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.264][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.266][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.268][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.278][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.279][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.280][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.282][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.285][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:40.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.302][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2025-08-30 16:04:40.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.327][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.328][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.330][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.331][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.332][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.333][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.335][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.338][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.340][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.343][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.345][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.346][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.351][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:40.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.368][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2025-08-30 16:04:40.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.393][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.394][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.395][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.397][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.398][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.400][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.408][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.409][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.410][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.425][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:40.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.442][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2025-08-30 16:04:40.443][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:40.444][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:40.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:40.485][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:40.489][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:40.491][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:04:40.492][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:40.494][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:04:40.498][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:40.502][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:40.504][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:04:40.505][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:40.507][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:04:40.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.600][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:40.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.627][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.629][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.630][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.631][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.632][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.635][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.644][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.645][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.647][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.651][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.652][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:40.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.669][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:04:40.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.695][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.696][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.697][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.699][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.700][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.703][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.706][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.708][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.712][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.713][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.720][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:40.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.739][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:04:40.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.766][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.767][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.769][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.770][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.778][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.780][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.782][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.783][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.784][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.786][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.790][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.809][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:04:40.810][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:40.811][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:40.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:40.830][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:40.834][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:40.836][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:04:40.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:40.839][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:04:40.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:40.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:40.940][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:40.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:40.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:40.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:40.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:40.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:40.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:40.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:40.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.968][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:40.969][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:40.970][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:40.971][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.974][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.984][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:40.985][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.986][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.990][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:40.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:40.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:40.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:40.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.007][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:04:41.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.033][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.034][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:41.035][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:41.036][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:41.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.043][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.044][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.045][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.048][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.050][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.052][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.057][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:41.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.074][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:04:41.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.115][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.116][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:41.118][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:41.119][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:41.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.121][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.128][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.131][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.133][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.134][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.135][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.139][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:41.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.155][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:04:41.157][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:41.158][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:41.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:41.175][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:41.180][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:04:41.181][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:04:41.183][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:04:41.185][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:04:41.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:41.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:41.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:41.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:41.276][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:41.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.302][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.304][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:41.305][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:41.306][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:41.307][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.309][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.310][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.312][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.314][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.315][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.317][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.319][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.320][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.321][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.332][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.333][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:41.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.350][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:04:41.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.375][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.376][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:41.377][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:41.379][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:41.380][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.383][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.388][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.391][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.393][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.394][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.395][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.399][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:41.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.416][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:04:41.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:41.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.440][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.442][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:41.443][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:41.444][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:41.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.448][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.450][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.453][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.456][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.458][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:41.459][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.464][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:41.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:41.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:41.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:41.481][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2025-08-30 16:04:41.482][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:41.483][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:41.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:41.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:41.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:41.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:41.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:41.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:41.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:41.525][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:41.530][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:41.531][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:41.533][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:04:41.908][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:04:42.288][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:42.290][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content"
biodb.TRACE[2025-08-30 16:04:42.296][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.request"
biodb.DEBUG[2025-08-30 16:04:42.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:42.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:42.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:42.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:42.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:42.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:42.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:42.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:42.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:42.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:42.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:42.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:42.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:42.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:42.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:42.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:42.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:42.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:42.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:42.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:42.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:42.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:42.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:42.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:42.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:42.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:42.375][private$loadEntries] Creating entries from ids [1]: "17813".
biodb.DEBUG[2025-08-30 16:04:42.376][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:42.378][cch$loadFileContent] Trying to load 1 files from cache: [1]: "17813".
biodb.TRACE[2025-08-30 16:04:42.380][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:42.381][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:42.383][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:42.384][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:42.386][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:42.387][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:42.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:42.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:42.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:42.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:42.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:42.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:42.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:42.404][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.DEBUG[2025-08-30 16:04:42.408][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:42.409][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:42.411][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.TRACE[2025-08-30 16:04:42.784][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813).
biodb.DEBUG[2025-08-30 16:04:43.167][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:43.170][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.content"
biodb.TRACE[2025-08-30 16:04:43.181][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.request"
biodb.TRACE[2025-08-30 16:04:43.185][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/17813.xml"
biodb.DEBUG[2025-08-30 16:04:43.187][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:43.189][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:43.191][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:43.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:43.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:43.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:43.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:43.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:43.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:43.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:43.209][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.210][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.213][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.221][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:43.223][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:43.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.225][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.227][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:43.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:43.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.232][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:43.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:43.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.241][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:43.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:43.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.247][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:43.248][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:43.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:43.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:43.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.258][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.259][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:43.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.269][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:43.270][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:43.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.273][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.274][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:43.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:43.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.280][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:43.281][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:43.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.299][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:43.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:43.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.304][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.306][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.308][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.316][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:43.317][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:43.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.320][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:43.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:43.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.327][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:43.328][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.333][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:43.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:43.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.338][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:43.339][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:43.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.343][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:43.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:43.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:43.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:43.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:43.401][self$createEntryFromContent] Accession numbers: 17813.
biodb.TRACE[2025-08-30 16:04:43.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:43.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:43.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:43.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:43.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:43.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:43.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:43.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:43.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:43.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:43.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:43.433][private$loadEntries] Creating entries from ids [1]: "30109".
biodb.DEBUG[2025-08-30 16:04:43.434][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:43.436][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30109".
biodb.TRACE[2025-08-30 16:04:43.438][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:43.439][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:43.441][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:43.442][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:43.443][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:43.445][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:43.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:43.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:43.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:43.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:43.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:43.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:43.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:43.463][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.DEBUG[2025-08-30 16:04:43.466][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:43.468][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:43.470][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.TRACE[2025-08-30 16:04:43.843][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109).
biodb.DEBUG[2025-08-30 16:04:44.219][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:44.221][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.content"
biodb.TRACE[2025-08-30 16:04:44.226][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.request"
biodb.TRACE[2025-08-30 16:04:44.229][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30109.xml"
biodb.DEBUG[2025-08-30 16:04:44.232][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:44.233][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:44.235][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:44.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:44.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:44.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:44.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:44.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:44.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:44.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:44.252][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.253][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.262][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:44.264][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:44.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.268][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:44.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:44.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.273][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:44.274][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:44.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.278][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:44.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:44.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.283][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:44.285][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:44.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:44.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:44.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.294][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:44.295][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:44.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:44.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:44.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.304][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:44.306][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:44.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.308][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.310][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:44.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:44.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.315][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:44.316][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:44.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.320][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:44.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:44.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.326][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.327][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.336][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:44.337][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:44.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:44.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:44.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.347][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:44.348][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:44.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.352][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:44.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:44.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.357][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:44.358][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:44.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.362][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:44.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:44.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:44.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:44.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:44.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:44.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:44.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:44.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:44.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:44.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:44.419][self$createEntryFromContent] Accession numbers: 30109.
biodb.TRACE[2025-08-30 16:04:44.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:44.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:44.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:44.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:44.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:44.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:44.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:44.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:44.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:44.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:44.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:44.449][private$loadEntries] Creating entries from ids [1]: "33275".
biodb.DEBUG[2025-08-30 16:04:44.451][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:44.453][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33275".
biodb.TRACE[2025-08-30 16:04:44.454][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:44.456][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:44.457][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:44.459][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:44.460][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:44.461][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:44.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:44.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:44.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:44.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:44.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:44.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:44.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:44.488][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.DEBUG[2025-08-30 16:04:44.492][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:44.494][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:44.495][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.TRACE[2025-08-30 16:04:44.869][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275).
biodb.DEBUG[2025-08-30 16:04:45.252][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:45.254][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.content"
biodb.TRACE[2025-08-30 16:04:45.259][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.request"
biodb.TRACE[2025-08-30 16:04:45.263][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33275.xml"
biodb.DEBUG[2025-08-30 16:04:45.265][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:45.266][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:45.268][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:45.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:45.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:45.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:45.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:45.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:45.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:45.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:45.305][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.307][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.315][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:45.317][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:45.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.321][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:45.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:45.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.326][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:45.327][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:45.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.331][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:45.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:45.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.336][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:45.337][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:45.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:45.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:45.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.346][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:45.347][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:45.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:45.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:45.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.356][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:45.357][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:45.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.361][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:45.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:45.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.366][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:45.368][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:45.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.372][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:45.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:45.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.377][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.379][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.388][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:45.389][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:45.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.392][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.393][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:45.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:45.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.399][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:45.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:45.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.405][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:45.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:45.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.410][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:45.412][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:45.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.416][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:45.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:45.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:45.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:45.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:45.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:45.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:45.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:45.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:45.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:45.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:45.473][self$createEntryFromContent] Accession numbers: 33275.
biodb.TRACE[2025-08-30 16:04:45.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:45.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:45.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:45.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:45.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:45.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:45.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:45.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:45.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:45.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:45.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:45.503][private$loadEntries] Creating entries from ids [1]: "33277".
biodb.DEBUG[2025-08-30 16:04:45.504][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:45.506][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33277".
biodb.TRACE[2025-08-30 16:04:45.508][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:45.509][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:45.511][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:45.512][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:45.513][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:45.515][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:45.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:45.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:45.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:45.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:45.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:45.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:45.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:45.531][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.DEBUG[2025-08-30 16:04:45.535][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:45.536][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:45.538][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.TRACE[2025-08-30 16:04:45.915][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277).
biodb.DEBUG[2025-08-30 16:04:46.306][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:46.308][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.content"
biodb.TRACE[2025-08-30 16:04:46.313][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.request"
biodb.TRACE[2025-08-30 16:04:46.317][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33277.xml"
biodb.DEBUG[2025-08-30 16:04:46.319][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:46.320][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:46.322][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:46.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:46.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:46.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:46.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:46.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:46.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:46.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:46.339][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.341][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.350][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:46.351][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:46.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.355][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:46.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:46.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.361][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:46.362][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:46.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.364][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.366][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:46.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:46.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.371][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:46.373][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:46.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:46.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:46.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.382][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:46.384][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:46.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:46.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:46.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:46.394][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:46.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.397][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.398][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:46.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:46.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.404][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:46.405][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:46.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.408][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.409][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:46.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:46.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.415][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.416][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.419][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.427][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:46.428][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:46.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.432][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:46.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:46.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.438][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:46.439][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:46.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.443][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:46.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:46.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.449][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:46.450][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:46.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.454][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:46.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:46.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:46.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:46.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:46.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:46.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:46.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:46.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:46.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:46.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:46.527][self$createEntryFromContent] Accession numbers: 33277.
biodb.TRACE[2025-08-30 16:04:46.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:46.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:46.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:46.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:46.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:46.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:46.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:46.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:46.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:46.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:46.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:46.559][private$loadEntries] Creating entries from ids [1]: "52421".
biodb.DEBUG[2025-08-30 16:04:46.560][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:46.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "52421".
biodb.TRACE[2025-08-30 16:04:46.564][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:46.566][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:46.567][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:46.569][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:46.570][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:46.571][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:46.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:46.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:46.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:46.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:46.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:46.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:46.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:46.590][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.DEBUG[2025-08-30 16:04:46.594][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:46.595][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:46.597][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.TRACE[2025-08-30 16:04:46.970][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421).
biodb.DEBUG[2025-08-30 16:04:47.349][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:47.351][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.content"
biodb.TRACE[2025-08-30 16:04:47.356][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.request"
biodb.TRACE[2025-08-30 16:04:47.360][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52421.xml"
biodb.DEBUG[2025-08-30 16:04:47.363][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:47.364][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:47.366][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:47.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:47.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:47.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:47.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:47.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:47.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:47.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:47.383][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.385][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.394][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:47.396][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:47.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.400][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:47.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:47.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.405][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:47.407][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:47.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.411][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:47.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:47.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:47.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:47.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:47.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:47.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.427][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:47.429][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:47.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:47.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:47.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.438][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:47.440][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:47.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.444][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:47.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:47.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.449][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:47.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:47.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.465][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:47.467][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:47.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.471][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:47.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:47.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.476][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:47.478][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:47.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.482][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:47.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:47.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.487][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:47.488][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:47.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.492][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:47.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:47.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:47.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:47.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:47.547][self$createEntryFromContent] Accession numbers: 52421.
biodb.TRACE[2025-08-30 16:04:47.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:47.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:47.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:47.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:47.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:47.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:47.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:47.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:47.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:47.595][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:04:47.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:47.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:47.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:47.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:47.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:47.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:47.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:47.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.622][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.623][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:47.624][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:47.625][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:47.627][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.628][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.629][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.633][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.634][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.637][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.639][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.642][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.645][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:47.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.674][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:04:47.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:47.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:47.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:47.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:47.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:47.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:47.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:47.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.699][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.700][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:47.701][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:47.702][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:47.703][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.705][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.706][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.711][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.716][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.717][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.718][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.722][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.759][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:04:47.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:47.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:47.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:47.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:47.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:47.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:47.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:47.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.785][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:04:47.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:04:47.788][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:04:47.789][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.790][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.795][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.796][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.800][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.801][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:04:47.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.807][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:04:47.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:47.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:47.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:47.824][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:04:47.825][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:04:47.826][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:04:47.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:47.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:47.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:47.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:47.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:47.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:47.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:47.845][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:04:47.849][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:47.851][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:47.853][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-08-30 16:04:48.231][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-08-30 16:04:48.750][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:48.753][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content"
biodb.TRACE[2025-08-30 16:04:48.759][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.request"
biodb.DEBUG[2025-08-30 16:04:48.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:48.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:48.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:48.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:48.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:48.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:48.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:48.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:48.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:48.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:48.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:48.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:48.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:48.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:48.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:48.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:48.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:48.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:48.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:48.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:48.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:48.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:48.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:48.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:48.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:48.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:48.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:48.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:48.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:48.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:48.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:48.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:48.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:48.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:48.839][private$loadEntries] Creating entries from ids [1]: "65567".
biodb.DEBUG[2025-08-30 16:04:48.841][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:48.843][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65567".
biodb.TRACE[2025-08-30 16:04:48.844][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:48.846][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:48.847][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:48.849][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:48.850][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:48.851][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:48.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:48.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:48.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:48.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:48.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:48.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:48.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:48.868][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.DEBUG[2025-08-30 16:04:48.872][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:48.873][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:48.875][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.TRACE[2025-08-30 16:04:49.247][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567).
biodb.DEBUG[2025-08-30 16:04:49.620][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:49.622][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.content"
biodb.TRACE[2025-08-30 16:04:49.627][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.request"
biodb.TRACE[2025-08-30 16:04:49.630][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65567.xml"
biodb.DEBUG[2025-08-30 16:04:49.632][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:49.634][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:49.635][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:49.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:49.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:49.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:49.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:49.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:49.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:49.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:49.652][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.654][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.663][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:49.664][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:49.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.668][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:49.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:49.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.673][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:49.675][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:49.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.677][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:49.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:49.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.684][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:49.686][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:49.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:49.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:49.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.695][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:49.696][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:49.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.698][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:49.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:49.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.705][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:49.707][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:49.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.711][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:49.712][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:49.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.716][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:49.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:49.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.721][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.732][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:49.733][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:49.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:49.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:49.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.742][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:49.744][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:49.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.761][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:49.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:49.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.767][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:49.768][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:49.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.772][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:49.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:49.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:49.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:49.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:49.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:49.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:49.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:49.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:49.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:49.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:49.845][self$createEntryFromContent] Accession numbers: 65567.
biodb.TRACE[2025-08-30 16:04:49.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:49.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:49.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:49.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:49.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:49.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:49.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:49.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:49.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:49.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:49.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:49.874][private$loadEntries] Creating entries from ids [1]: "65576".
biodb.DEBUG[2025-08-30 16:04:49.875][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:49.877][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65576".
biodb.TRACE[2025-08-30 16:04:49.879][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:49.880][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:49.881][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:49.883][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:49.884][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:49.885][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:49.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:49.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:49.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:49.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:49.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:49.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:49.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:49.902][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.DEBUG[2025-08-30 16:04:49.906][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:49.907][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:49.909][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.TRACE[2025-08-30 16:04:50.281][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576).
biodb.DEBUG[2025-08-30 16:04:50.660][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:50.663][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.content"
biodb.TRACE[2025-08-30 16:04:50.675][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.request"
biodb.TRACE[2025-08-30 16:04:50.721][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65576.xml"
biodb.DEBUG[2025-08-30 16:04:50.728][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:50.730][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:50.731][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:50.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:50.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:50.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:50.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:50.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:50.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:50.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:50.750][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.751][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.761][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:50.763][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:50.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.767][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:50.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:50.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.773][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:50.774][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:50.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:50.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:50.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.783][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:50.786][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:50.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:50.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:50.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.796][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:50.797][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:50.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:50.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:50.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.807][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:50.808][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:50.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.812][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:50.814][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:50.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.818][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:50.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:50.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.823][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.825][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.834][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:50.836][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:50.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.840][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:50.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:50.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.846][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:50.847][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:50.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.851][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:50.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:50.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.856][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:50.858][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:50.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.862][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:50.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:50.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:50.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:50.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:50.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:50.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:50.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:50.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:50.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:50.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:50.921][self$createEntryFromContent] Accession numbers: 65576.
biodb.TRACE[2025-08-30 16:04:50.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:50.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:50.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:50.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:50.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:50.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:50.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:50.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:50.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:50.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:50.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:50.952][private$loadEntries] Creating entries from ids [1]: "66352".
biodb.DEBUG[2025-08-30 16:04:50.953][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:50.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66352".
biodb.TRACE[2025-08-30 16:04:50.957][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:50.958][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:50.960][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:50.961][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:50.962][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:50.963][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:50.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:50.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:50.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:50.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:50.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:50.978][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:50.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:50.980][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.DEBUG[2025-08-30 16:04:50.984][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:50.985][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:50.987][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.TRACE[2025-08-30 16:04:51.361][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352).
biodb.DEBUG[2025-08-30 16:04:51.741][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:51.743][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.content"
biodb.TRACE[2025-08-30 16:04:51.748][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.request"
biodb.TRACE[2025-08-30 16:04:51.752][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66352.xml"
biodb.DEBUG[2025-08-30 16:04:51.754][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:51.756][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:51.758][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:51.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:51.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:51.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:51.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:51.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:51.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:51.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:51.789][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.791][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.801][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:51.803][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:51.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.807][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:51.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:51.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.812][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:51.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:51.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.818][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:51.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:51.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.823][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:51.824][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:51.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:51.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:51.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.833][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:51.835][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:51.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.839][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:51.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:51.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.844][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:51.846][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:51.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.850][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:51.851][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:51.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.855][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:51.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:51.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.861][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.862][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.873][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:51.874][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:51.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.878][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:51.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:51.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.884][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:51.885][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:51.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.890][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:51.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:51.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:51.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:51.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:51.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:51.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:51.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:51.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:51.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:51.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:51.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:51.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:51.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:51.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:51.958][self$createEntryFromContent] Accession numbers: 66352.
biodb.TRACE[2025-08-30 16:04:51.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:51.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:51.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:51.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:51.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:51.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:51.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:51.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:51.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:51.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:51.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:51.988][private$loadEntries] Creating entries from ids [1]: "67567".
biodb.DEBUG[2025-08-30 16:04:51.990][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:51.992][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67567".
biodb.TRACE[2025-08-30 16:04:51.993][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:51.995][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:51.996][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:51.997][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:51.999][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:52.000][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:52.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:52.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:52.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:52.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:52.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:52.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:52.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:52.017][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.DEBUG[2025-08-30 16:04:52.020][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:52.022][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:52.024][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.TRACE[2025-08-30 16:04:52.396][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567).
biodb.DEBUG[2025-08-30 16:04:52.775][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:04:52.778][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.content"
biodb.TRACE[2025-08-30 16:04:52.783][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.request"
biodb.TRACE[2025-08-30 16:04:52.786][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67567.xml"
biodb.DEBUG[2025-08-30 16:04:52.789][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:04:52.790][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:04:52.792][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:04:52.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:52.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:52.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:52.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:52.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:52.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:52.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:04:52.827][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:52.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:52.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.831][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:52.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:52.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.837][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:52.839][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:52.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.843][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:04:52.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:04:52.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.848][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:52.849][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:52.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.853][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:04:52.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:04:52.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.858][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:52.859][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:52.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:04:52.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:04:52.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.869][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:52.870][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:52.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:04:52.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:04:52.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.879][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:52.881][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:04:52.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.885][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:52.886][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:52.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.890][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:04:52.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:04:52.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:52.897][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:52.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:52.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:52.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.907][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:52.908][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:52.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.911][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:04:52.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:04:52.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.918][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:52.919][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:52.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.923][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:04:52.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:04:52.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.929][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:52.930][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:52.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.934][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:04:52.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:04:52.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:52.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:52.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:52.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:52.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:52.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:52.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:04:52.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:04:52.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:52.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:52.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:52.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:52.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:52.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:52.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:52.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:52.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:52.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:52.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:53.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:53.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:53.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:53.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:04:53.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:04:53.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:53.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:53.009][self$createEntryFromContent] Accession numbers: 67567.
biodb.TRACE[2025-08-30 16:04:53.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:53.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:53.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:53.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:53.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:53.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:53.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:53.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:04:53.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:53.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:04:53.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:04:53.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:04:53.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:53.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:53.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:53.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:53.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:53.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:53.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:53.038][private$loadEntries] Creating entries from ids [1]: "67693".
biodb.DEBUG[2025-08-30 16:04:53.040][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:04:53.042][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67693".
biodb.TRACE[2025-08-30 16:04:53.043][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:04:53.045][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:04:53.046][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:04:53.047][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:04:53.049][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:04:53.050][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:04:53.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:04:53.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:04:53.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:04:53.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:04:53.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:04:53.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:04:53.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:04:53.067][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.DEBUG[2025-08-30 16:04:53.070][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:04:53.071][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:04:53.073][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.TRACE[2025-08-30 16:04:53.446][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693).
biodb.DEBUG[2025-08-30 16:04:59.996][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:00.007][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.content"
biodb.TRACE[2025-08-30 16:05:00.033][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.request"
biodb.TRACE[2025-08-30 16:05:00.037][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67693.xml"
biodb.DEBUG[2025-08-30 16:05:00.039][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:00.041][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:00.042][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:00.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:00.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:00.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:00.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:00.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:00.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:00.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:00.060][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.061][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.071][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:00.072][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:00.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.075][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.076][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:00.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:00.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.082][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:00.083][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:00.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.086][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.087][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:00.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:00.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:00.094][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:00.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:00.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:00.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.104][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:00.106][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:00.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:00.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:00.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.115][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:00.117][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:00.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.121][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:00.128][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:00.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.132][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:00.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:00.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.137][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.148][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:00.150][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:00.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.152][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:00.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:00.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.159][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:00.160][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:00.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.165][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:00.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:00.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:00.171][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:00.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.174][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.176][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:00.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:00.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:00.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:00.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:00.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:00.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:00.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:00.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:00.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:00.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:00.233][self$createEntryFromContent] Accession numbers: 67693.
biodb.TRACE[2025-08-30 16:05:00.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:00.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:00.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:00.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:00.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:00.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:00.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:00.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:00.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:00.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:00.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:00.265][private$loadEntries] Creating entries from ids [1]: "67700".
biodb.DEBUG[2025-08-30 16:05:00.266][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:00.268][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67700".
biodb.TRACE[2025-08-30 16:05:00.270][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:00.271][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:00.273][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:00.274][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:00.276][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:00.277][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:00.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:00.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:00.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:00.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:00.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:00.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:00.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:00.295][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.DEBUG[2025-08-30 16:05:00.299][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:00.300][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:00.302][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.TRACE[2025-08-30 16:05:00.676][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700).
biodb.DEBUG[2025-08-30 16:05:01.062][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:01.065][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.content"
biodb.TRACE[2025-08-30 16:05:01.069][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.request"
biodb.TRACE[2025-08-30 16:05:01.073][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67700.xml"
biodb.DEBUG[2025-08-30 16:05:01.075][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:01.077][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:01.078][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:01.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:01.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:01.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:01.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:01.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:01.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:01.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:01.114][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.115][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.125][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:01.127][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:01.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.136][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.137][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:01.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:01.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.143][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:01.144][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:01.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.147][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.148][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:01.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:01.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.154][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:01.156][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:01.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:01.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:01.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.166][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:01.167][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:01.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.170][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:01.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:01.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.190][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:01.192][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:01.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.195][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.196][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:01.198][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:01.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.202][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:01.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:01.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.207][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.209][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.218][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:01.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:01.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.222][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:01.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:01.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.230][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:01.231][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:01.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.233][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.235][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:01.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:01.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.241][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:01.242][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:01.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.244][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.246][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:01.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:01.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:01.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:01.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:01.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:01.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:01.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:01.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:01.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:01.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:01.311][self$createEntryFromContent] Accession numbers: 67700.
biodb.TRACE[2025-08-30 16:05:01.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:01.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:01.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:01.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:01.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:01.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:01.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:01.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:01.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:01.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:01.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:01.343][private$loadEntries] Creating entries from ids [1]: "67701".
biodb.DEBUG[2025-08-30 16:05:01.344][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:01.346][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67701".
biodb.TRACE[2025-08-30 16:05:01.348][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:01.349][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:01.351][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:01.352][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:01.354][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:01.355][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:01.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:01.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:01.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:01.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:01.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:01.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:01.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:01.374][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.DEBUG[2025-08-30 16:05:01.378][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:01.379][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:01.381][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.TRACE[2025-08-30 16:05:01.757][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701).
biodb.DEBUG[2025-08-30 16:05:02.136][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:02.139][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.content"
biodb.TRACE[2025-08-30 16:05:02.144][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.request"
biodb.TRACE[2025-08-30 16:05:02.148][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67701.xml"
biodb.DEBUG[2025-08-30 16:05:02.151][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:02.153][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:02.155][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:02.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:02.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:02.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:02.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:02.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:02.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:02.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:02.174][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.178][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.185][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:02.186][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:02.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.190][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:02.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:02.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.196][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:02.197][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:02.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:02.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:02.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:02.208][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:02.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:02.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:02.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.218][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:02.219][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:02.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:02.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:02.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.228][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:02.230][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:02.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.233][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.234][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:02.236][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:02.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.240][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:02.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:02.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.246][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.247][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.257][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:02.259][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:02.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:02.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:02.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.269][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:02.270][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:02.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.274][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:02.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:02.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:02.281][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:02.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.283][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.284][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:02.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:02.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:02.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:02.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:02.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:02.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:02.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:02.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:02.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:02.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:02.341][self$createEntryFromContent] Accession numbers: 67701.
biodb.TRACE[2025-08-30 16:05:02.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:02.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:02.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:02.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:02.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:02.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:02.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:02.411][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:02.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:02.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:02.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:02.416][private$loadEntries] Creating entries from ids [1]: "67705".
biodb.DEBUG[2025-08-30 16:05:02.418][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:02.420][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67705".
biodb.TRACE[2025-08-30 16:05:02.421][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:02.423][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:02.424][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:02.426][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:02.427][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:02.429][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:02.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:02.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:02.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:02.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:02.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:02.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:02.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:02.457][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.DEBUG[2025-08-30 16:05:02.460][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:02.462][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:02.464][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.TRACE[2025-08-30 16:05:02.836][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705).
biodb.DEBUG[2025-08-30 16:05:03.216][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:03.219][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.content"
biodb.TRACE[2025-08-30 16:05:03.224][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.request"
biodb.TRACE[2025-08-30 16:05:03.228][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67705.xml"
biodb.DEBUG[2025-08-30 16:05:03.230][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:03.232][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:03.234][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:03.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:03.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:03.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:03.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:03.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:03.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:03.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:03.251][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.253][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.261][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:03.263][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:03.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.265][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.267][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:03.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:03.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.272][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:03.273][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:03.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:03.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:03.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.283][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:03.284][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:03.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.286][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:03.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:03.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.293][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:03.295][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:03.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.297][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:03.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:03.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.304][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:03.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:03.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.308][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.309][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:03.311][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:03.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.315][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:03.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:03.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.320][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.331][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:03.333][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:03.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:03.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:03.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.342][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:03.344][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:03.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.346][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:03.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:03.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.353][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:03.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:03.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:03.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:03.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:03.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:03.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:03.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:03.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:03.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:03.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:03.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:03.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:03.416][self$createEntryFromContent] Accession numbers: 67705.
biodb.TRACE[2025-08-30 16:05:03.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:03.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:03.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:03.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:03.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:03.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:03.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:03.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:03.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:03.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:03.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:03.445][private$loadEntries] Creating entries from ids [1]: "75265".
biodb.DEBUG[2025-08-30 16:05:03.446][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:03.448][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75265".
biodb.TRACE[2025-08-30 16:05:03.450][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:03.451][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:03.453][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:03.454][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:03.456][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:03.457][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:03.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:03.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:03.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:03.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:03.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:03.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:03.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:03.475][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.DEBUG[2025-08-30 16:05:03.478][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:03.479][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:03.481][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.TRACE[2025-08-30 16:05:03.854][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265).
biodb.DEBUG[2025-08-30 16:05:04.229][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:04.232][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.content"
biodb.TRACE[2025-08-30 16:05:04.237][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.request"
biodb.TRACE[2025-08-30 16:05:04.241][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75265.xml"
biodb.DEBUG[2025-08-30 16:05:04.243][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:04.245][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:04.247][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:04.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:04.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:04.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:04.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:04.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:04.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:04.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:04.264][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.265][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.268][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.274][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:04.276][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:04.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:04.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:04.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.285][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:04.286][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:04.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.288][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.290][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:04.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:04.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.295][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:04.296][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:04.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.299][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.300][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:04.301][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:04.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.305][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:04.307][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:04.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.310][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:04.312][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:04.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.314][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.316][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:04.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:04.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.331][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:04.332][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:04.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:04.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:04.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.341][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:04.343][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:04.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.346][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:04.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:04.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:04.353][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:04.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.357][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:04.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:04.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:04.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:04.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:04.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:04.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:04.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:04.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:04.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:04.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:04.425][self$createEntryFromContent] Accession numbers: 75265.
biodb.TRACE[2025-08-30 16:05:04.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:04.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:04.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:04.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:04.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:04.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:04.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:04.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:04.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:04.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:04.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:04.455][private$loadEntries] Creating entries from ids [1]: "77370".
biodb.DEBUG[2025-08-30 16:05:04.456][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:04.458][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77370".
biodb.TRACE[2025-08-30 16:05:04.460][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:04.461][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:04.463][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:04.464][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:04.465][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:04.467][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:04.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:04.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:04.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:04.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:04.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:04.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:04.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:04.484][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.DEBUG[2025-08-30 16:05:04.487][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:04.489][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:04.490][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.TRACE[2025-08-30 16:05:04.866][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370).
biodb.DEBUG[2025-08-30 16:05:05.239][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:05.242][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.content"
biodb.TRACE[2025-08-30 16:05:05.247][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.request"
biodb.TRACE[2025-08-30 16:05:05.250][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77370.xml"
biodb.DEBUG[2025-08-30 16:05:05.253][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:05.254][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:05.256][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:05.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:05.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:05.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:05.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:05.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:05.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:05.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:05.273][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.274][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.283][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:05.285][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:05.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:05.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:05.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.294][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:05.295][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:05.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.297][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:05.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:05.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.304][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:05.305][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:05.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.308][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.309][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:05.311][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:05.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.315][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:05.316][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:05.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.318][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.320][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:05.321][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:05.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.325][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:05.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:05.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.331][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.340][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:05.342][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:05.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.344][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:05.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:05.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.351][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:05.352][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:05.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.356][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:05.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:05.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.361][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:05.362][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:05.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.366][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:05.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:05.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:05.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:05.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:05.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:05.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:05.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:05.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:05.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:05.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:05.422][self$createEntryFromContent] Accession numbers: 77370.
biodb.TRACE[2025-08-30 16:05:05.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:05.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:05.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:05.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:05.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:05.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:05.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:05.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:05.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:05.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:05.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:05.453][private$loadEntries] Creating entries from ids [1]: "79074".
biodb.DEBUG[2025-08-30 16:05:05.454][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:05.457][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79074".
biodb.TRACE[2025-08-30 16:05:05.458][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:05.460][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:05.461][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:05.462][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:05.464][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:05.465][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:05.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:05.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:05.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:05.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:05.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:05.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:05.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:05.483][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.DEBUG[2025-08-30 16:05:05.487][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:05.489][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:05.491][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.TRACE[2025-08-30 16:05:05.865][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074).
biodb.DEBUG[2025-08-30 16:05:06.245][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:06.248][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.content"
biodb.TRACE[2025-08-30 16:05:06.253][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.request"
biodb.TRACE[2025-08-30 16:05:06.256][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79074.xml"
biodb.DEBUG[2025-08-30 16:05:06.259][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:06.261][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:06.262][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:06.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:06.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:06.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:06.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:06.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:06.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:06.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:06.280][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.282][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.292][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:06.294][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:06.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.296][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.298][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:06.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:06.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.304][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:06.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:06.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.344][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:06.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:06.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.350][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:06.352][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:06.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.354][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:06.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:06.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:06.362][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:06.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.364][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.366][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:06.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:06.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.371][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:06.372][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:06.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.376][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:06.377][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:06.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.381][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:06.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:06.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.386][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.387][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.397][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:06.398][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:06.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.402][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:06.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:06.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.407][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:06.409][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:06.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.412][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:06.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:06.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.417][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:06.419][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:06.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.423][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:06.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:06.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:06.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:06.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:06.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:06.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:06.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:06.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:06.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:06.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:06.488][self$createEntryFromContent] Accession numbers: 79074.
biodb.TRACE[2025-08-30 16:05:06.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:06.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:06.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:06.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:06.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:06.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:06.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:06.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:06.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:06.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:06.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:06.524][private$loadEntries] Creating entries from ids [1]: "79302".
biodb.DEBUG[2025-08-30 16:05:06.525][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:06.528][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79302".
biodb.TRACE[2025-08-30 16:05:06.529][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:06.531][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:06.532][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:06.533][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:06.535][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:06.536][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:06.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:06.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:06.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:06.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:06.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:06.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:06.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:06.554][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.DEBUG[2025-08-30 16:05:06.557][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:06.559][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:06.560][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.TRACE[2025-08-30 16:05:06.933][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302).
biodb.DEBUG[2025-08-30 16:05:07.312][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:07.315][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.content"
biodb.TRACE[2025-08-30 16:05:07.320][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.request"
biodb.TRACE[2025-08-30 16:05:07.323][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79302.xml"
biodb.DEBUG[2025-08-30 16:05:07.325][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:07.327][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:07.329][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:07.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:07.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:07.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:07.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:07.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:07.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:07.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:07.368][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.379][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:07.380][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:07.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.382][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.384][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:07.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:07.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.389][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:07.390][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:07.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.394][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:07.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:07.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.399][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:07.401][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:07.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:07.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:07.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:07.411][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:07.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.414][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:07.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:07.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.420][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:07.422][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:07.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.426][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:07.427][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:07.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.429][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.431][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:07.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:07.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.436][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.437][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.447][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:07.448][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:07.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.451][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:07.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:07.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.458][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:07.459][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:07.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.463][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:07.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:07.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.468][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:07.470][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:07.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.472][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.474][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:07.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:07.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:07.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:07.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:07.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:07.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:07.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:07.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:07.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:07.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:07.534][self$createEntryFromContent] Accession numbers: 79302.
biodb.TRACE[2025-08-30 16:05:07.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:07.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:07.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:07.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:07.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:07.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:07.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:07.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:07.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:07.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:07.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:07.585][private$loadEntries] Creating entries from ids [1]: "84164".
biodb.DEBUG[2025-08-30 16:05:07.586][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:07.589][cch$loadFileContent] Trying to load 1 files from cache: [1]: "84164".
biodb.TRACE[2025-08-30 16:05:07.590][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:07.592][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:07.593][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:07.594][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:07.596][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:07.597][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:07.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:07.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:07.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:07.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:07.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:07.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:07.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:07.613][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.DEBUG[2025-08-30 16:05:07.617][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:07.618][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:07.620][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.TRACE[2025-08-30 16:05:07.994][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164).
biodb.DEBUG[2025-08-30 16:05:08.366][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:08.369][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.content"
biodb.TRACE[2025-08-30 16:05:08.398][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.request"
biodb.TRACE[2025-08-30 16:05:08.401][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/84164.xml"
biodb.DEBUG[2025-08-30 16:05:08.440][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:08.442][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:08.444][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:08.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:08.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:08.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:08.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:08.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:08.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:08.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:08.463][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.465][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.467][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.475][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:08.476][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:08.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.480][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:08.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:08.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.486][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:08.487][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:08.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.491][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:08.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:08.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.498][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:08.499][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:08.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.502][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.503][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:08.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:08.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.509][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:08.510][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:08.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:08.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:08.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.523][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:08.524][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:08.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.527][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.528][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:08.530][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:08.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.532][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.534][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:08.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:08.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.539][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.541][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.550][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:08.552][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:08.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:08.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:08.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.561][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:08.563][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:08.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.567][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:08.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:08.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.573][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:08.574][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:08.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.578][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:08.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:08.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:08.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:08.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:08.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:08.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:08.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:08.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:08.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:08.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:08.639][self$createEntryFromContent] Accession numbers: 84164.
biodb.TRACE[2025-08-30 16:05:08.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:08.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:08.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:08.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:08.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:08.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:08.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:08.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:08.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:08.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:08.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:08.672][private$loadEntries] Creating entries from ids [1]: "132314".
biodb.DEBUG[2025-08-30 16:05:08.673][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:08.675][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132314".
biodb.TRACE[2025-08-30 16:05:08.677][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:08.678][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:08.680][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:08.681][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:08.683][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:08.684][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:08.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:08.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:08.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:08.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:08.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:08.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:08.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:08.702][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.DEBUG[2025-08-30 16:05:08.706][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:08.707][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:08.709][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.TRACE[2025-08-30 16:05:09.086][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314).
biodb.DEBUG[2025-08-30 16:05:09.472][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:09.474][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.content"
biodb.TRACE[2025-08-30 16:05:09.479][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.request"
biodb.TRACE[2025-08-30 16:05:09.557][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132314.xml"
biodb.DEBUG[2025-08-30 16:05:09.560][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:09.561][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:09.563][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:09.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:09.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:09.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:09.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:09.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:09.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:09.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:09.580][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.581][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.590][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:09.591][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:09.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.594][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:09.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:09.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.600][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:09.602][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:09.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:09.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:09.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.611][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:09.612][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:09.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:09.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.621][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:09.622][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:09.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:09.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:09.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.635][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:09.636][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:09.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.640][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:09.641][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:09.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.645][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:09.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:09.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.650][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.651][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.673][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:09.675][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:09.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:09.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:09.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.685][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:09.687][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:09.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.691][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:09.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:09.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.696][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:09.697][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:09.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.701][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:09.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:09.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:09.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:09.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:09.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:09.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:09.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:09.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:09.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:09.756][self$createEntryFromContent] Accession numbers: 132314.
biodb.TRACE[2025-08-30 16:05:09.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:09.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:09.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:09.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:09.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:09.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:09.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:09.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:09.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:09.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:09.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:09.785][private$loadEntries] Creating entries from ids [1]: "132338".
biodb.DEBUG[2025-08-30 16:05:09.786][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:09.788][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132338".
biodb.TRACE[2025-08-30 16:05:09.790][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:09.791][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:09.793][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:09.794][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:09.795][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:09.796][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:09.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:09.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:09.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:09.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:09.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:09.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:09.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:09.813][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.DEBUG[2025-08-30 16:05:09.816][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:09.818][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:09.819][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.TRACE[2025-08-30 16:05:10.195][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338).
biodb.DEBUG[2025-08-30 16:05:10.576][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:10.579][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.content"
biodb.TRACE[2025-08-30 16:05:10.583][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.request"
biodb.TRACE[2025-08-30 16:05:10.587][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132338.xml"
biodb.DEBUG[2025-08-30 16:05:10.589][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:10.591][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:10.592][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:10.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:10.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:10.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:10.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:10.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:10.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:10.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:10.609][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.611][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.620][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:10.622][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:10.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.626][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:10.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:10.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.631][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:10.633][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:10.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.635][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.637][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:10.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:10.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.642][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:10.644][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:10.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:10.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:10.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.653][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:10.654][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:10.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.657][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:10.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:10.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.663][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:10.665][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:10.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.669][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:10.670][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:10.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.672][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.674][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:10.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:10.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.679][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.680][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.689][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:10.691][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:10.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:10.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:10.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.700][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:10.702][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:10.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.705][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:10.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:10.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.711][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:10.712][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:10.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:10.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:10.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:10.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:10.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:10.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:10.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:10.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:10.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:10.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:10.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:10.773][self$createEntryFromContent] Accession numbers: 132338.
biodb.TRACE[2025-08-30 16:05:10.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:10.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:10.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:10.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:10.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:10.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:10.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:10.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:10.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:10.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:10.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:10.803][private$loadEntries] Creating entries from ids [1]: "139019".
biodb.DEBUG[2025-08-30 16:05:10.805][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:10.807][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139019".
biodb.TRACE[2025-08-30 16:05:10.808][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:10.810][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:10.811][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:10.812][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:10.814][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:10.815][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:10.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:10.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:10.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:10.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:10.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:10.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:10.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:10.832][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.DEBUG[2025-08-30 16:05:10.835][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:10.837][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:10.839][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.TRACE[2025-08-30 16:05:11.213][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019).
biodb.DEBUG[2025-08-30 16:05:11.598][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:11.600][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.content"
biodb.TRACE[2025-08-30 16:05:11.605][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.request"
biodb.TRACE[2025-08-30 16:05:11.622][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139019.xml"
biodb.DEBUG[2025-08-30 16:05:11.625][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:11.627][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:11.629][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:11.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:11.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:11.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:11.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:11.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:11.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:11.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:11.646][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.682][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.691][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:11.693][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:11.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.695][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:11.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:11.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.701][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:11.703][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:11.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.707][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:11.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:11.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.712][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:11.713][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:11.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:11.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:11.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.722][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:11.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:11.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:11.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:11.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.733][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:11.734][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:11.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.737][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.739][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:11.740][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:11.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.744][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:11.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:11.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.750][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.751][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.753][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.760][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:11.762][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:11.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.765][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:11.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:11.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.772][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:11.773][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:11.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.777][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:11.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:11.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:11.786][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:11.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.788][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.790][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:11.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:11.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:11.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:11.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:11.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:11.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:11.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:11.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:11.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:11.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:11.864][self$createEntryFromContent] Accession numbers: 139019.
biodb.TRACE[2025-08-30 16:05:11.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:11.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:11.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:11.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:11.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:11.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:11.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:11.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:11.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:11.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:11.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:11.896][private$loadEntries] Creating entries from ids [1]: "139367".
biodb.DEBUG[2025-08-30 16:05:11.897][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:11.899][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139367".
biodb.TRACE[2025-08-30 16:05:11.901][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:11.902][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:11.904][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:11.905][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:11.907][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:11.908][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:11.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:11.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:11.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:11.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:11.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:11.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:11.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:11.925][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.DEBUG[2025-08-30 16:05:11.929][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:11.930][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:11.932][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.TRACE[2025-08-30 16:05:12.306][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367).
biodb.DEBUG[2025-08-30 16:05:12.686][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:12.689][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.content"
biodb.TRACE[2025-08-30 16:05:12.694][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.request"
biodb.TRACE[2025-08-30 16:05:12.697][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139367.xml"
biodb.DEBUG[2025-08-30 16:05:12.700][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:12.701][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:12.703][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:12.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:12.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:12.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:12.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:12.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:12.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:12.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:12.721][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.723][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.732][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:12.734][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:12.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.738][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:12.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:12.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.743][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:12.744][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:12.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:12.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:12.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.754][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:12.755][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:12.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:12.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:12.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.765][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:12.766][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:12.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:12.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:12.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.775][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:12.777][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:12.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.781][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:12.782][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:12.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.786][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:12.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:12.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.792][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.793][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.803][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:12.804][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:12.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:12.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:12.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.814][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:12.815][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:12.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.820][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:12.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:12.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.825][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:12.827][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:12.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.831][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:12.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:12.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:12.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:12.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:12.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:12.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:12.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:12.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:12.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:12.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:12.901][self$createEntryFromContent] Accession numbers: 139367.
biodb.TRACE[2025-08-30 16:05:12.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:12.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:12.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:12.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:12.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:12.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:12.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:12.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:12.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:12.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:12.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:12.933][private$loadEntries] Creating entries from ids [1]: "145029".
biodb.DEBUG[2025-08-30 16:05:12.934][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:12.936][cch$loadFileContent] Trying to load 1 files from cache: [1]: "145029".
biodb.TRACE[2025-08-30 16:05:12.938][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:12.939][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:12.941][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:12.942][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:12.944][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:12.945][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:12.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:12.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:12.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:12.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:12.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:12.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:12.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:12.962][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.DEBUG[2025-08-30 16:05:12.966][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:12.968][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:12.970][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.TRACE[2025-08-30 16:05:13.343][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029).
biodb.DEBUG[2025-08-30 16:05:13.736][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:13.739][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.content"
biodb.TRACE[2025-08-30 16:05:13.834][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.request"
biodb.TRACE[2025-08-30 16:05:13.838][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/145029.xml"
biodb.DEBUG[2025-08-30 16:05:13.840][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:13.842][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:13.843][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:13.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:13.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:13.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:13.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:13.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:13.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:13.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:13.860][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:13.861][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:13.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:13.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:13.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.870][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:13.872][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:13.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.876][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:13.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:13.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.881][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:13.882][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:13.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.887][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:13.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:13.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.892][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:13.894][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:13.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.896][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:13.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:13.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.903][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:13.905][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:13.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:13.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:13.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.915][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:13.921][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:13.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.924][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.925][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:13.927][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:13.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.929][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.931][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:13.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:13.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.937][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:13.938][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:13.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:13.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:13.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.947][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:13.949][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:13.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:13.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:13.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.959][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:13.960][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:13.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.964][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:13.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:13.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.969][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:13.971][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:13.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.975][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:13.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:13.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:13.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:13.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:13.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:13.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:13.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:13.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:13.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:13.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:13.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:13.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:14.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:14.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:14.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:14.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:14.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:14.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:14.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:14.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:14.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:14.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:14.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:14.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:14.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:14.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:14.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:14.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:14.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:14.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:14.054][self$createEntryFromContent] Accession numbers: 145029.
biodb.TRACE[2025-08-30 16:05:14.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:14.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:14.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:14.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:14.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:14.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:14.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:14.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:14.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:14.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:14.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:14.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:14.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:14.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:14.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:14.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:14.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:14.112][private$loadEntries] Creating entries from ids [1]: "173077".
biodb.DEBUG[2025-08-30 16:05:14.114][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:14.117][cch$loadFileContent] Trying to load 1 files from cache: [1]: "173077".
biodb.TRACE[2025-08-30 16:05:14.119][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:14.122][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:14.124][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:14.126][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:14.128][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:14.130][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:14.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:14.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:14.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:14.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:14.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:14.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:14.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:14.158][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.DEBUG[2025-08-30 16:05:14.164][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:14.166][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:14.169][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.TRACE[2025-08-30 16:05:14.551][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077).
biodb.DEBUG[2025-08-30 16:05:15.009][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:15.012][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.content"
biodb.TRACE[2025-08-30 16:05:15.017][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.request"
biodb.TRACE[2025-08-30 16:05:15.021][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/173077.xml"
biodb.DEBUG[2025-08-30 16:05:15.023][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:15.025][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:15.027][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:15.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:15.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:15.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:15.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:15.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:15.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:15.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:15.044][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.045][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.048][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.055][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:15.056][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:15.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.060][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:15.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:15.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.065][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:15.067][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:15.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.071][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:15.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:15.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.076][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:15.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:15.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.082][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:15.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:15.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.119][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:15.120][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:15.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:15.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:15.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.130][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:15.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:15.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.136][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:15.137][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:15.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.142][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:15.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:15.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.152][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.159][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:15.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:15.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:15.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.170][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:15.171][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:15.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.174][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.175][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:15.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:15.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.181][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:15.182][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:15.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.186][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:15.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:15.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:15.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:15.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:15.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:15.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:15.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:15.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:15.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:15.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:15.245][self$createEntryFromContent] Accession numbers: 173077.
biodb.TRACE[2025-08-30 16:05:15.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:15.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:15.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:15.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:15.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:15.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:15.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:15.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:15.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:15.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:15.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:15.282][private$loadEntries] Creating entries from ids [1]: "365445".
biodb.DEBUG[2025-08-30 16:05:15.283][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:15.285][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365445".
biodb.TRACE[2025-08-30 16:05:15.287][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:15.288][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:15.290][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:15.291][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:15.293][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:15.294][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:15.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:15.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:15.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:15.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:15.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:15.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:15.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:15.312][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.DEBUG[2025-08-30 16:05:15.316][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:15.317][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:15.319][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.TRACE[2025-08-30 16:05:15.693][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445).
biodb.DEBUG[2025-08-30 16:05:16.075][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:16.078][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.content"
biodb.TRACE[2025-08-30 16:05:16.083][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.request"
biodb.TRACE[2025-08-30 16:05:16.086][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365445.xml"
biodb.DEBUG[2025-08-30 16:05:16.088][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:16.090][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:16.091][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:16.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:16.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:16.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:16.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:16.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:16.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:16.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:16.108][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.110][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.118][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:16.120][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:16.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.122][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.124][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:16.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:16.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.129][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:16.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:16.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.134][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:16.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:16.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.140][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:16.141][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:16.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:16.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:16.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.150][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:16.152][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:16.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:16.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:16.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.161][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:16.162][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:16.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.165][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.166][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:16.168][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:16.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.170][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.171][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:16.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:16.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.178][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.187][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:16.188][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:16.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:16.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:16.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.197][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:16.199][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:16.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.203][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:16.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:16.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.208][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:16.209][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:16.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.213][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:16.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:16.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:16.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:16.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:16.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:16.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:16.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:16.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:16.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:16.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:16.269][self$createEntryFromContent] Accession numbers: 365445.
biodb.TRACE[2025-08-30 16:05:16.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:16.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:16.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:16.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:16.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:16.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:16.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:16.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:16.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:16.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:16.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:16.299][private$loadEntries] Creating entries from ids [1]: "32151".
biodb.DEBUG[2025-08-30 16:05:16.300][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:16.302][cch$loadFileContent] Trying to load 1 files from cache: [1]: "32151".
biodb.TRACE[2025-08-30 16:05:16.313][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:16.315][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:16.317][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:16.318][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:16.320][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:16.321][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:16.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:16.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:16.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:16.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:16.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:16.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:16.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:16.339][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.DEBUG[2025-08-30 16:05:16.342][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:16.343][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:16.345][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.TRACE[2025-08-30 16:05:16.717][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151).
biodb.DEBUG[2025-08-30 16:05:17.094][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:17.096][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.content"
biodb.TRACE[2025-08-30 16:05:17.101][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.request"
biodb.TRACE[2025-08-30 16:05:17.123][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32151.xml"
biodb.DEBUG[2025-08-30 16:05:17.125][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:17.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:17.128][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:17.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:17.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:17.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:17.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:17.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:17.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:17.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:17.145][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.155][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:17.157][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:17.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.161][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:17.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:17.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.166][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:17.167][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:17.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.170][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.171][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:17.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:17.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:17.178][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:17.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:17.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:17.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.188][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:17.189][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:17.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:17.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:17.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.199][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:17.200][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:17.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.204][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:17.205][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:17.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.209][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:17.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:17.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.215][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.216][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.218][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.225][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:17.226][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:17.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.230][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:17.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:17.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.239][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:17.240][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:17.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:17.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:17.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.249][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:17.250][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:17.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.253][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.254][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:17.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:17.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:17.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:17.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:17.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:17.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:17.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:17.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:17.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:17.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:17.311][self$createEntryFromContent] Accession numbers: 32151.
biodb.TRACE[2025-08-30 16:05:17.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:17.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:17.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:17.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:17.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:17.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:17.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:17.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:17.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:17.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:17.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:17.342][private$loadEntries] Creating entries from ids [1]: "67676".
biodb.DEBUG[2025-08-30 16:05:17.343][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:17.345][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67676".
biodb.TRACE[2025-08-30 16:05:17.347][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:17.348][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:17.350][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:17.351][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:17.352][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:17.354][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:17.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:17.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:17.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:17.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:17.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:17.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:17.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:17.371][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.DEBUG[2025-08-30 16:05:17.375][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:17.376][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:17.378][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.TRACE[2025-08-30 16:05:17.754][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676).
biodb.DEBUG[2025-08-30 16:05:18.133][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:18.136][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.content"
biodb.TRACE[2025-08-30 16:05:18.140][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.request"
biodb.TRACE[2025-08-30 16:05:18.144][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67676.xml"
biodb.DEBUG[2025-08-30 16:05:18.146][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:18.148][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:18.149][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:18.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:18.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:18.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:18.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:18.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:18.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:18.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:18.168][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.169][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.178][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:18.180][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:18.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.184][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:18.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:18.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.189][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:18.191][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:18.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.193][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.195][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:18.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:18.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.200][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:18.202][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:18.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.204][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:18.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:18.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:18.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.215][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:18.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:18.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.222][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:18.224][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:18.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.228][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:18.229][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:18.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.233][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:18.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:18.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.239][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.249][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:18.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:18.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.253][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:18.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:18.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.260][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:18.261][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:18.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.278][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:18.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:18.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.285][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:18.286][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:18.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.290][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:18.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:18.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:18.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:18.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:18.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:18.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:18.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:18.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:18.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:18.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:18.370][self$createEntryFromContent] Accession numbers: 67676.
biodb.TRACE[2025-08-30 16:05:18.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:18.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:18.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:18.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:18.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:18.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:18.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:18.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:18.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:18.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:18.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:18.415][private$loadEntries] Creating entries from ids [1]: "69690".
biodb.DEBUG[2025-08-30 16:05:18.416][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:18.418][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69690".
biodb.TRACE[2025-08-30 16:05:18.420][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:18.421][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:18.423][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:18.424][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:18.425][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:18.427][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:18.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:18.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:18.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:18.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:18.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:18.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:18.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:18.444][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.DEBUG[2025-08-30 16:05:18.448][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:18.449][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:18.451][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.TRACE[2025-08-30 16:05:18.827][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690).
biodb.DEBUG[2025-08-30 16:05:19.208][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:19.211][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.content"
biodb.TRACE[2025-08-30 16:05:19.223][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.request"
biodb.TRACE[2025-08-30 16:05:19.283][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69690.xml"
biodb.DEBUG[2025-08-30 16:05:19.286][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:19.288][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:19.290][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:19.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:19.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:19.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:19.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:19.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:19.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:19.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:19.312][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.314][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.317][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.330][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:19.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:19.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.335][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:19.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:19.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.345][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:19.346][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:19.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.349][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.351][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:19.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:19.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.356][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:19.357][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:19.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:19.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:19.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.367][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:19.369][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:19.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:19.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:19.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.378][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:19.380][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:19.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.382][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.384][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:19.385][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:19.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.390][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:19.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:19.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.396][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.398][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.409][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:19.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:19.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:19.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:19.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.422][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:19.423][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:19.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.428][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:19.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:19.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.434][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:19.436][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:19.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:19.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:19.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:19.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:19.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:19.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:19.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:19.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:19.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:19.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:19.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:19.501][self$createEntryFromContent] Accession numbers: 69690.
biodb.TRACE[2025-08-30 16:05:19.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:19.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:19.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:19.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:19.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:19.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:19.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:19.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:19.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:19.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:19.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:19.532][private$loadEntries] Creating entries from ids [1]: "69734".
biodb.DEBUG[2025-08-30 16:05:19.534][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:19.536][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69734".
biodb.TRACE[2025-08-30 16:05:19.537][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:19.539][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:19.540][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:19.541][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:19.543][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:19.544][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:19.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:19.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:19.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:19.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:19.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:19.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:19.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:19.561][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.DEBUG[2025-08-30 16:05:19.565][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:19.566][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:19.568][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.TRACE[2025-08-30 16:05:19.941][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734).
biodb.DEBUG[2025-08-30 16:05:20.323][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:20.326][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.content"
biodb.TRACE[2025-08-30 16:05:20.331][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.request"
biodb.TRACE[2025-08-30 16:05:20.335][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69734.xml"
biodb.DEBUG[2025-08-30 16:05:20.337][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:20.339][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:20.341][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:20.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:20.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:20.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:20.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:20.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:20.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:20.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:20.374][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.375][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.385][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:20.386][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:20.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.390][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:20.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:20.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.396][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:20.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:20.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:20.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:20.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.407][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:20.409][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:20.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:20.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:20.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.418][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:20.419][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:20.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.423][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:20.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:20.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.429][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:20.430][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:20.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.434][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:20.435][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:20.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.439][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:20.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:20.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.446][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.456][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:20.457][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:20.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.459][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:20.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:20.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.466][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:20.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:20.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.471][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:20.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:20.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.476][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:20.478][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:20.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.482][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:20.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:20.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:20.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:20.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:20.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:20.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:20.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:20.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:20.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:20.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:20.537][self$createEntryFromContent] Accession numbers: 69734.
biodb.TRACE[2025-08-30 16:05:20.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:20.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:20.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:20.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:20.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:20.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:20.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:20.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:20.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:20.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:20.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:20.566][private$loadEntries] Creating entries from ids [1]: "79978".
biodb.DEBUG[2025-08-30 16:05:20.567][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:20.569][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79978".
biodb.TRACE[2025-08-30 16:05:20.571][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:20.572][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:20.574][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:20.575][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:20.576][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:20.577][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:20.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:20.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:20.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:20.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:20.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:20.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:20.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:20.594][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.DEBUG[2025-08-30 16:05:20.598][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:20.599][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:20.601][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.TRACE[2025-08-30 16:05:20.975][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978).
biodb.DEBUG[2025-08-30 16:05:21.356][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:21.359][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.content"
biodb.TRACE[2025-08-30 16:05:21.363][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.request"
biodb.TRACE[2025-08-30 16:05:21.367][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79978.xml"
biodb.DEBUG[2025-08-30 16:05:21.369][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:21.370][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:21.372][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:21.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:21.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:21.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:21.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:21.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:21.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:21.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:21.389][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.390][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.392][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.399][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:21.400][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:21.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:21.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:21.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.410][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:21.411][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:21.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:21.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:21.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.420][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:21.421][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:21.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.425][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:21.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:21.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.430][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:21.432][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:21.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:21.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:21.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.441][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:21.442][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:21.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.444][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.446][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:21.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:21.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.451][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:21.452][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:21.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.456][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:21.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:21.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.462][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.463][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.472][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:21.473][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:21.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:21.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:21.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.483][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:21.484][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:21.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.488][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:21.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:21.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.493][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:21.494][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:21.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.497][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.498][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:21.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:21.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:21.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:21.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:21.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:21.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:21.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:21.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:21.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:21.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:21.566][self$createEntryFromContent] Accession numbers: 79978.
biodb.TRACE[2025-08-30 16:05:21.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:21.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:21.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:21.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:21.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:21.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:21.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:21.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:21.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:21.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:21.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:21.596][private$loadEntries] Creating entries from ids [1]: "88771".
biodb.DEBUG[2025-08-30 16:05:21.597][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-30 16:05:21.599][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88771".
biodb.TRACE[2025-08-30 16:05:21.600][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-30 16:05:21.602][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-30 16:05:21.603][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-30 16:05:21.604][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-30 16:05:21.606][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-08-30 16:05:21.607][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-08-30 16:05:21.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:21.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:21.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:21.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:21.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:21.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:21.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:21.624][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.DEBUG[2025-08-30 16:05:21.627][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-08-30 16:05:21.629][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-08-30 16:05:21.630][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.TRACE[2025-08-30 16:05:22.005][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771).
biodb.DEBUG[2025-08-30 16:05:22.381][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-08-30 16:05:22.383][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.content"
biodb.TRACE[2025-08-30 16:05:22.388][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.request"
biodb.TRACE[2025-08-30 16:05:22.392][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88771.xml"
biodb.DEBUG[2025-08-30 16:05:22.394][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-08-30 16:05:22.396][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-30 16:05:22.397][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-30 16:05:22.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:22.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:22.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:22.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:22.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:22.415][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.417][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.419][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.427][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:22.428][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:22.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.433][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:22.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:22.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.438][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:22.439][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:22.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.444][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:22.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:22.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.449][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:22.451][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:22.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:22.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:22.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.460][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:22.461][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:22.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:22.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:22.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.471][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:22.473][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:22.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.477][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:22.478][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:22.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-30 16:05:22.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:22.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.488][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.489][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.499][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:22.501][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:22.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:22.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:22.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.510][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:22.512][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:22.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-30 16:05:22.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:22.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.522][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:22.523][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:22.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.527][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:22.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:22.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:22.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:22.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:22.588][self$createEntryFromContent] Accession numbers: 88771.
biodb.TRACE[2025-08-30 16:05:22.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:22.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:22.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:22.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:22.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:22.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:22.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:22.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:22.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:22.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:22.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:22.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:22.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:22.668][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:22.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:22.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:22.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:22.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:22.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:22.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.694][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.695][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:22.696][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:22.697][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:22.698][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.700][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.701][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.705][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.706][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.710][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.711][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.717][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:22.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.745][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:05:22.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:22.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:22.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:22.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:22.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:22.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.772][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.773][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:22.775][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:22.776][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:22.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.783][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.784][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.790][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.791][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.796][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:22.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.836][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:05:22.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:22.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:22.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:22.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:22.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:22.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.878][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.880][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:22.881][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:22.882][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:22.883][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.886][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.891][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.894][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.896][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:22.897][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.902][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:22.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:22.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.920][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:05:22.922][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:22.923][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:22.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:22.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:22.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:22.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:22.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:22.942][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:22.946][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:22.948][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2025-08-30 16:05:22.949][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:22.951][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2025-08-30 16:05:22.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:22.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:22.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:22.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:22.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:22.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:22.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:22.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:22.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:22.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:22.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:22.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.083][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:23.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.108][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.110][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:23.111][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:23.112][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:23.113][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.115][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.121][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.125][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.126][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.127][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.128][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.132][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:23.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.149][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:05:23.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.176][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:23.177][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:23.178][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:23.179][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.185][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.186][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.191][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.197][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:23.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.214][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:05:23.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.247][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.248][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:23.249][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:23.250][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:23.252][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.258][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.262][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.263][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.264][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.265][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.267][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.269][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.270][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:23.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.287][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:05:23.288][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:23.290][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:23.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:23.332][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:23.336][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:23.338][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2025-08-30 16:05:23.339][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:23.341][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2025-08-30 16:05:23.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.678][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:23.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:23.689][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:23.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.731][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.732][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:23.733][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:23.735][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:23.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.739][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.798][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.802][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.803][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.804][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.864][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:23.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.881][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:05:23.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:23.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:23.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:23.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:23.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:23.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:23.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:23.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:23.966][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.967][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:23.968][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:23.970][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:23.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:23.994][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:23.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:23.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.001][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.002][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.007][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.008][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.010][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.027][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:24.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.064][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:05:24.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.089][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.090][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:24.091][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:24.092][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:24.093][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.095][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.096][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.100][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.105][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.106][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.108][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.112][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:24.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.129][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2025-08-30 16:05:24.130][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:24.131][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:24.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:24.150][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:24.154][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:24.156][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365d4ea5e0e90826806fec708da6c9ab".
biodb.TRACE[2025-08-30 16:05:24.158][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:24.159][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content".
biodb.DEBUG[2025-08-30 16:05:24.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.288][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:24.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.315][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.316][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:24.317][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:24.318][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:24.320][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.321][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.322][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.325][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.326][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.327][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.332][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.333][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.335][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.338][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:24.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.356][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2025-08-30 16:05:24.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.393][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.394][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:24.396][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:24.397][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:24.398][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.405][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.407][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.411][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.413][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.414][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.415][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.419][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:24.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.435][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:05:24.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.462][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.463][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:24.465][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:24.466][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:24.467][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.532][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.533][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.541][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:24.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.561][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2025-08-30 16:05:24.563][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:24.565][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:24.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:24.592][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:24.597][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:24.598][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7b0416ab2d5cbf869f248000c039a8e8".
biodb.TRACE[2025-08-30 16:05:24.600][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:24.602][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content".
biodb.DEBUG[2025-08-30 16:05:24.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:24.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:24.775][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:24.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.802][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.803][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:24.804][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:24.805][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:24.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.814][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.815][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.819][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.821][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.827][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:24.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.845][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2025-08-30 16:05:24.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.875][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.878][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:24.880][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:24.882][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:24.884][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.886][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.892][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.903][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.905][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.917][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:24.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.951][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2025-08-30 16:05:24.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:24.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:24.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:24.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:24.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:24.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:24.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:24.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:24.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:24.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:24.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:24.994][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:24.996][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:24.997][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:24.999][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.002][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.010][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.012][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.015][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.020][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.022][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.028][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:25.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.048][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2025-08-30 16:05:25.049][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:25.050][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:25.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:25.104][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:25.109][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:25.111][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:05:25.112][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:25.114][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:05:25.118][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:25.122][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:25.124][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:05:25.126][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:25.127][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:05:25.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.254][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:25.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.281][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.282][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:25.283][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:25.284][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:25.286][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.287][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.291][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.297][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.299][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.303][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.304][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.306][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.320][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:25.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.347][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:05:25.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.373][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.374][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:25.375][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:25.376][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:25.377][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.380][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.385][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.389][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.390][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.391][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.396][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:25.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.414][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:05:25.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.438][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.439][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:25.441][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:25.442][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:25.443][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.444][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.446][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.451][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.454][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.455][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.457][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.458][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.460][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.461][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:25.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.478][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:05:25.479][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:25.480][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:25.483][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:25.498][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:25.502][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:25.504][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:05:25.505][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:25.507][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:05:25.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.603][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:25.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.628][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.629][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:25.631][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:25.632][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:25.633][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.636][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.646][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.647][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.649][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.651][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.652][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:25.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.669][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:05:25.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.695][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.696][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:25.697][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:25.698][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:25.700][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.706][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.712][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.715][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.719][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:25.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.756][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:05:25.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.794][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.795][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:25.796][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:25.797][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:25.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.805][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.811][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:25.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.817][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:25.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.833][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:05:25.834][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:25.836][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:25.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:25.853][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:25.857][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:25.859][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:05:25.860][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:25.862][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:05:25.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:25.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:25.975][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:25.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:25.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:25.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:25.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:25.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:25.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:25.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:25.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:25.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:25.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:25.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.001][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.003][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:26.004][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:26.005][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:26.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.008][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.009][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.016][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.018][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.019][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.025][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:26.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.052][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:05:26.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.080][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:26.081][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:26.083][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:26.084][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.085][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.096][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.097][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.103][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:26.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.120][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2025-08-30 16:05:26.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.151][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.152][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:26.153][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:26.155][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:26.156][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.157][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.163][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.164][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.167][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.170][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.171][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.172][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.175][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.176][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:26.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.194][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2025-08-30 16:05:26.196][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:26.197][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:26.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:26.246][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:26.250][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:26.252][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26eec570aadd234892b573eb0777bd78".
biodb.TRACE[2025-08-30 16:05:26.254][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:26.256][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content".
biodb.DEBUG[2025-08-30 16:05:26.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.511][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:26.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.539][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:26.540][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:26.541][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:26.542][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.545][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.548][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.552][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.553][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.554][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.556][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.559][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.560][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:26.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.577][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-30 16:05:26.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.602][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.603][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:26.604][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:26.605][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:26.607][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.613][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.617][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.618][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.619][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.621][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.622][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.626][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:26.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.643][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-30 16:05:26.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.668][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.669][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:26.670][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:26.671][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:26.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.674][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.675][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.679][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.681][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.684][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.686][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:26.687][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.688][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.692][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:26.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:26.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.709][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-30 16:05:26.710][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:26.712][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:26.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:26.730][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:26.734][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:26.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "20c224089a82bbffabd2e7dbc67cfae3".
biodb.TRACE[2025-08-30 16:05:26.738][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:26.740][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content".
biodb.DEBUG[2025-08-30 16:05:26.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:26.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:26.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:26.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:26.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:26.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:26.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:26.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:26.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:26.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:26.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.186][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.263][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.674][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:27.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.702][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:27.703][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:27.704][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:27.705][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.707][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.708][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.717][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.719][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.720][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.724][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.725][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:27.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.743][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2025-08-30 16:05:27.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.770][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:27.771][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:27.773][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:27.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.776][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.782][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.786][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.787][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.793][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.794][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:27.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.812][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2025-08-30 16:05:27.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.847][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:27.848][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:27.850][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:27.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.852][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.854][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.857][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.863][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.864][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:27.865][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.870][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:27.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:27.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.924][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2025-08-30 16:05:27.926][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:27.927][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:27.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:27.953][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:27.957][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:27.959][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2025-08-30 16:05:27.960][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:27.962][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2025-08-30 16:05:27.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:27.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:27.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:27.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:27.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:27.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:27.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:27.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:27.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:27.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:27.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:27.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:28.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:28.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:28.093][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:28.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.119][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.120][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:28.121][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:28.122][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:28.123][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.126][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.128][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.130][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.131][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.136][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.137][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.138][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.142][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:28.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.159][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2025-08-30 16:05:28.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.185][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.186][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:28.187][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:28.188][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:28.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.195][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.200][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.203][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.209][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:28.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.226][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2025-08-30 16:05:28.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.253][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:28.254][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:28.255][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:28.256][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.258][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.262][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.263][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.265][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.268][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.270][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-30 16:05:28.271][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.273][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.275][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.276][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-30 16:05:28.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.293][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2025-08-30 16:05:28.295][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:28.296][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:05:28.330][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:28.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:28.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.335][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:28.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:28.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.341][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:28.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:28.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:05:28.351][biodb::testThat]
biodb.INFO [2025-08-30 16:05:28.352][biodb::testThat] Running test function test_annotateMzValues_additional_fields (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2025-08-30 16:05:28.353][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-30 16:05:28.354][biodb::testThat]
biodb.TRACE[2025-08-30 16:05:28.358][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:05:28.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:05:28.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.363][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:05:28.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:05:28.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.369][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-30 16:05:28.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-30 16:05:28.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:28.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:28.455][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:28.459][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:28.461][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:05:28.463][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:28.464][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:05:28.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:28.497][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:28.501][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:28.503][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:05:28.505][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:28.506][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:05:28.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:28.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:28.567][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:28.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:28.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:28.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:28.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:28.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:28.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:28.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:28.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:28.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:28.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:28.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:28.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.592][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:28.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:28.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.597][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:28.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:28.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.613][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:28.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:28.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.618][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:28.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:28.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:28.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:28.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:28.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:28.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:28.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:28.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.680][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:28.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:28.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.685][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:28.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:28.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.690][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:28.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:28.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.716][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:28.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:28.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.721][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:28.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:28.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.726][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:28.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:28.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:28.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:28.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.736][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:28.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:28.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.741][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:28.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:28.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.746][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:28.747][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:28.749][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:28.751][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:28.753][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:28.754][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:28.755][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:28.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.759][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:28.760][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:28.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:28.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.769][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:28.770][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:28.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.774][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:28.775][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:28.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.779][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:28.780][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:28.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.783][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.965][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:28.967][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:28.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.971][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.972][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:28.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.975][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.977][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:28.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.980][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:28.982][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:28.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.985][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:28.987][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:28.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.990][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:28.991][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:28.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:28.995][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:28.996][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:28.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:28.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.000][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.001][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.004][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.010][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.011][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.014][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.016][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.019][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.021][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.024][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.025][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.029][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.030][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.034][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.035][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.039][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.040][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.042][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.044][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.045][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.048][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.050][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.052][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.053][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:29.055][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:29.056][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.057][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.061][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.062][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.065][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.067][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.070][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.072][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.075][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.076][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.080][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.081][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.085][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.086][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.090][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.091][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.094][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.096][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.098][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.099][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.104][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.105][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.109][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:29.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.126][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.131][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.136][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.156][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.160][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.165][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.186][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.233][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.238][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.243][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.263][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.268][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.273][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.288][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2025-08-30 16:05:29.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:29.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:29.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:29.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:29.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:29.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:29.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:29.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.324][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.330][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.425][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.430][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.464][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.469][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.474][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.490][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.495][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:29.496][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:29.497][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:29.499][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:29.500][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:29.502][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.503][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.507][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.508][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.510][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.512][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.517][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.519][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.522][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.524][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.527][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.529][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.531][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.532][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.534][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.537][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.539][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.541][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.543][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.544][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.548][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.549][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.552][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.553][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.558][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.560][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.563][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.565][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.567][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.568][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.570][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.573][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.575][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.579][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.580][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.584][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.585][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.589][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.591][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.595][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.596][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.600][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.601][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.605][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.606][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.610][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.611][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.615][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.616][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.620][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.621][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.623][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.625][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:29.626][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:29.627][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.629][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.632][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.633][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.636][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.637][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.638][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.642][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.643][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.647][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.648][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.651][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.652][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.653][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.657][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.658][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.662][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.663][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.665][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.667][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.668][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.672][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.673][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.677][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.678][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.680][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.682][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.683][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.687][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:29.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.703][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.708][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.713][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.734][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.745][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.788][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.793][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.833][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.838][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.843][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.849][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.859][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:29.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:29.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.864][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.869][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.874][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:29.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:29.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.887][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2025-08-30 16:05:29.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:29.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:29.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:29.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:29.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:29.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:29.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:29.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:29.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:29.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.915][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.920][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:29.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:29.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:29.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.940][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:29.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:29.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:29.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:29.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:29.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.964][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.969][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:29.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:29.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:29.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.993][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:29.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:29.998][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:29.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.017][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.022][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:30.023][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:30.024][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:30.025][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:30.027][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:30.028][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.029][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.031][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.033][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.034][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.042][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.044][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.047][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.084][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.088][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.089][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.093][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.094][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.096][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.098][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.099][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.101][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.102][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.104][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.106][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.107][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.108][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.112][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.113][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.117][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.118][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.120][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.121][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.123][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.126][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.127][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.136][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.137][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.141][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.142][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.144][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.146][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.150][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.152][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.155][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.156][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.160][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.161][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.165][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.166][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.170][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.171][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.174][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.176][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.178][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.179][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:30.181][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:30.182][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.187][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.188][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.197][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.202][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.203][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.207][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.208][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.212][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.213][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.217][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.223][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.224][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.228][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.229][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.231][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.233][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.234][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.238][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:30.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.255][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.260][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.265][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.367][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.372][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.376][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.381][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.386][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.396][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.401][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.406][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.418][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:30.420][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:30.421][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:30.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:30.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:30.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:30.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:30.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:30.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:30.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:30.441][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:30.446][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:30.448][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:05:30.449][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:30.451][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:05:30.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:30.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:30.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:30.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:30.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:30.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:30.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:30.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:30.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:30.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:30.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:30.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:30.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:30.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:30.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:30.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:30.513][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:30.518][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:30.520][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:05:30.521][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:30.523][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:05:30.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:30.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:30.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:30.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:30.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:30.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:30.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:30.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:30.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:30.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:30.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:30.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:30.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:30.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:30.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:30.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:30.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:30.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:30.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:30.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:30.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:30.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:30.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:30.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:30.615][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:30.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:30.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:30.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:30.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:30.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:30.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:30.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:30.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.641][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.646][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.661][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.693][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.698][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.723][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.728][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.743][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.747][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.752][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:30.753][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:30.755][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:30.756][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:30.757][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:30.758][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.760][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.763][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.764][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.768][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.772][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.773][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.774][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.778][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.779][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.783][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.784][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.792][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.794][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.797][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.799][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.804][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.807][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.808][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.812][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.813][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.817][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.818][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.821][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.823][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.826][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.827][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.836][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.837][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.845][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.846][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.850][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.855][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.856][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.858][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.859][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.861][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.864][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.866][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.899][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.901][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.903][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.904][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.906][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.909][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:30.910][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:30.912][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.913][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.916][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.918][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.921][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.923][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:30.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.926][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:30.927][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:30.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.931][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:30.932][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:30.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.936][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.937][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:30.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.941][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.942][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:30.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.944][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.946][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.947][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:30.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.950][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.952][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:30.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.955][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.957][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:30.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.960][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:30.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:30.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.965][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:30.967][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:30.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.970][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:30.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:30.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:30.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.987][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.992][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:30.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:30.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:30.997][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:30.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.023][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.071][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.076][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.081][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.117][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.122][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.127][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.148][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.154][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.159][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.173][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:31.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:31.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:31.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:31.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:31.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:31.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:31.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:31.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.199][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.204][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.220][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.225][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.256][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.261][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.286][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.292][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.302][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.307][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.312][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.317][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:31.318][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:31.319][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:31.320][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:31.322][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:31.323][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.324][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.327][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.328][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.329][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.332][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.333][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.334][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.336][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.338][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.339][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.343][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.346][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.347][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.349][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.351][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.352][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.354][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.357][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.358][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.362][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.363][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.367][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.368][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.372][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.373][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.377][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.378][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.382][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.383][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.387][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.388][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.393][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.396][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.398][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.403][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.406][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.408][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.411][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.412][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.416][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.417][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.421][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.422][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.426][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.427][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.431][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.432][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.436][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.437][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.441][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:31.442][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:31.443][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.445][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.448][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.450][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.453][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.455][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.458][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.460][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.463][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.465][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.467][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.469][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.470][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.472][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.474][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.475][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.479][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.480][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.483][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.484][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.485][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.488][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.489][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.490][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.494][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.495][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.499][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.501][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.505][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:31.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.524][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.530][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.535][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.556][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.566][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.596][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.601][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.606][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.612][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.650][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.656][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.661][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.682][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.692][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.696][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.709][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:31.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:31.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:31.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:31.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:31.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:31.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:31.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:31.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.752][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.757][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.772][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.782][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.801][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.806][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.831][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.836][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.841][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.846][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.851][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.856][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.862][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:31.864][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:31.865][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:31.866][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:31.867][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:31.869][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.870][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.875][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.876][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.879][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.881][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.885][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.886][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.889][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.890][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.891][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.894][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.895][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.896][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.900][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.901][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.905][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.907][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.914][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.915][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.918][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.919][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.920][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.923][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.924][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.925][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.929][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.930][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.934][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.935][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.938][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:31.940][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:31.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.943][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:31.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.947][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.948][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:31.950][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:31.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.952][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.953][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:31.954][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:31.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.957][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.958][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.959][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:31.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.963][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.964][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:31.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.968][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.969][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:31.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.973][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.974][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:31.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.976][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.978][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.979][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:31.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.983][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:31.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:31.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.987][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:31.989][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:31.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.991][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:31.992][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:31.994][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:31.995][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:31.996][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:31.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:31.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.000][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.001][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.010][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.011][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.015][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.016][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.020][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.021][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.025][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.026][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.029][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.031][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.033][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.034][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.035][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.039][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.040][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.043][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.044][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.045][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.047][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.049][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:32.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.065][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.069][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.074][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.099][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.104][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.172][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.176][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.181][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.201][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.205][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.210][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.222][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:32.224][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:32.225][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:32.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:32.244][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:32.247][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:32.249][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:05:32.251][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:32.252][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:05:32.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.478][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:32.483][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:32.485][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:05:32.486][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:32.488][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:05:32.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:32.584][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:32.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:32.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:32.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:32.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:32.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:32.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:32.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:32.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.610][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.616][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.635][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.645][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.660][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.665][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.690][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.695][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.721][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:32.722][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:32.723][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:32.725][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:32.726][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:32.727][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.728][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.732][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.733][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.739][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.742][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.744][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.747][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.749][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.771][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.772][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.776][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.777][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.780][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.781][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.782][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.786][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.787][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.791][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.792][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.796][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.797][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.801][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.802][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.806][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.807][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.811][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.812][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.817][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.820][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.821][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.822][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.826][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.828][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.830][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.831][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.833][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.835][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.837][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.838][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.842][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.843][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.846][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.847][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.848][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.852][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.854][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.856][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.858][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.863][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.864][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.868][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:32.869][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:32.870][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.872][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.875][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.877][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.879][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.882][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.885][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.887][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.889][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.890][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:32.892][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:32.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.894][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.895][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.897][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:32.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.900][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.902][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:32.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.905][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.907][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:32.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.912][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:32.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.916][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.917][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:32.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.919][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.921][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:32.922][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:32.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.926][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:32.928][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:32.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.931][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:32.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:32.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:32.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.949][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.954][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.959][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:32.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:32.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:32.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.988][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.993][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:32.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:32.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:32.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:32.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.034][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.039][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.044][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.079][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.084][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.089][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.099][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.109][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.114][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.119][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.133][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2025-08-30 16:05:33.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:33.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:33.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:33.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:33.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:33.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:33.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:33.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.158][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.163][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.178][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.183][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.209][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.214][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.260][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.265][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.270][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:33.271][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:33.272][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:33.273][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:33.275][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:33.276][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.277][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.279][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.281][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.282][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.286][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.287][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.290][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.292][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.294][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.295][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.297][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.299][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.300][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.304][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.305][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.306][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.309][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.310][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.311][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.314][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.315][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.316][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.320][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.321][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.324][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.325][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.326][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.330][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.331][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.335][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.336][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.340][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.341][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.345][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.346][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.348][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.350][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.351][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.353][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.354][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.356][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.358][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.359][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.361][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.363][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.364][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.366][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.369][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.373][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.374][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.375][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.379][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.380][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.384][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.385][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.389][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.391][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.394][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:33.396][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:33.397][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.398][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.402][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.403][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.406][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.407][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.409][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.412][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.414][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.417][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.423][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.424][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.428][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.429][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.437][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.438][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.442][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.443][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.446][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.447][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.448][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.451][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.452][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.453][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.455][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.457][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:33.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.473][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.478][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.483][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.503][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.509][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.581][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.586][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.591][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.607][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.612][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.617][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.622][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.634][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2025-08-30 16:05:33.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:33.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:33.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:33.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:33.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:33.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:33.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:33.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.659][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.664][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.684][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.727][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.732][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.757][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.762][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.777][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.781][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.786][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:33.787][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:33.789][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:33.790][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:33.791][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:33.792][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.794][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.797][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.798][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.808][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.809][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.813][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.814][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.818][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.819][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.822][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.824][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.827][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.829][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.831][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.832][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.837][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.839][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.841][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.842][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.844][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.848][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.849][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.853][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.854][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.857][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.858][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.859][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.863][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.866][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.869][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.871][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.874][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.876][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.885][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.886][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.890][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.891][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:33.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.895][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.896][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.899][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.901][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.903][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.904][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.906][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.909][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.911][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.913][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.914][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.915][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.918][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.919][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:33.920][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:33.921][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.923][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.926][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.927][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.931][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.933][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:33.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.936][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:33.938][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:33.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.942][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:33.943][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:33.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.947][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.949][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:33.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.951][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.953][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.954][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:33.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.957][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.958][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.960][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:33.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.964][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.965][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:33.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.968][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.969][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:33.971][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:33.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.974][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:33.976][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:33.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.980][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:33.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:33.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:33.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:33.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:33.996][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:33.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:33.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.001][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.007][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.038][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.043][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.104][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.110][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.135][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.140][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.158][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:34.159][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:34.161][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:34.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:34.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:34.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:34.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:34.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:34.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:34.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:34.187][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:34.193][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:34.194][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-30 16:05:34.196][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:34.198][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-30 16:05:34.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:34.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:34.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:34.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:34.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:34.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:34.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:34.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:34.231][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:34.235][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:34.237][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-30 16:05:34.239][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:34.241][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-30 16:05:34.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:34.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:34.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:34.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:34.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:34.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:34.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:34.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:34.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:34.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:34.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:34.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:34.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:34.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:34.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:34.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:34.305][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:34.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:34.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:34.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:34.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:34.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:34.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:34.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:34.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.341][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.356][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.361][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.366][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.378][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.390][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.411][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.438][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.443][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.459][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.464][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.469][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:34.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:34.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.474][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:34.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:34.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.480][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:34.481][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:34.482][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:34.483][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:34.485][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:34.486][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.487][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.491][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.492][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.496][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.498][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.502][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.507][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.508][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.512][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.514][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.517][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.519][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.522][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.524][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.528][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.529][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.532][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.534][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.535][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.539][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.540][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.543][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.545][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.549][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:34.551][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:34.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.553][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.555][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.556][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.560][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.561][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.566][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.571][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.576][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.577][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.580][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.581][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.582][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.586][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.587][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.590][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.591][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.592][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.595][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.596][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.597][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.601][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.602][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.606][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.607][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.610][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.611][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.613][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.616][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:34.618][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:34.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.620][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.621][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:34.623][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:34.624][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.625][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.629][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.635][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.637][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.639][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.640][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.642][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.644][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.645][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.649][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.650][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.654][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.664][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.665][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.668][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.669][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.674][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.675][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.679][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:34.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.701][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.707][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.728][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.734][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.739][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.813][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.818][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.824][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.829][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.834][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.845][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.850][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.856][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.868][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2025-08-30 16:05:34.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:34.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:34.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:34.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:34.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:34.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:34.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:34.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:34.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:34.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.893][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.898][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:34.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:34.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:34.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.913][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.917][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:34.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:34.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:34.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:34.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:34.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.942][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.947][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:34.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:34.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:34.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.972][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.977][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:34.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.982][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.987][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:34.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:34.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.992][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:34.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:34.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:34.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:34.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.002][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.007][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.011][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:35.013][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:35.014][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:35.015][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:35.016][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:35.017][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.019][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.022][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.026][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.027][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.028][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.031][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.032][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.033][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.037][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.038][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.041][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.042][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.043][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.047][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.049][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.051][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.052][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.053][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.056][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.057][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.058][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.061][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.079][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.081][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.083][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.085][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.090][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.091][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.095][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.096][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.100][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.102][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.104][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.106][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.109][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.115][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.119][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.121][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.124][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.126][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.128][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.129][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.131][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.134][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.139][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.140][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.143][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.144][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.145][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.148][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.149][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.150][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.154][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.155][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.160][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.161][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.165][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.166][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.171][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:35.172][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:35.173][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.177][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.180][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.181][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.182][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.191][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.192][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.195][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.196][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.197][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.199][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.201][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.202][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.204][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.206][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.207][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.209][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.211][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.212][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.216][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.217][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.221][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.222][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.224][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.225][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.227][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.235][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.236][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.238][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.243][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:35.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.260][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.265][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.270][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.338][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.343][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.348][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.384][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.389][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.394][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.399][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.404][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.420][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.425][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.438][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2025-08-30 16:05:35.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:35.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:35.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:35.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:35.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:35.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:35.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:35.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.463][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.469][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.515][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.520][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.545][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.550][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.565][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.575][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.580][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.585][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:35.586][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:35.587][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:35.588][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:35.590][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:35.591][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.592][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.595][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.596][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.597][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.599][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.606][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.607][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.610][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.611][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.612][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.616][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.617][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.621][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.622][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.625][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.626][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.627][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.630][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.631][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.635][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.636][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.638][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.642][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.643][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.647][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.648][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.652][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.653][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.657][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.663][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.667][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.668][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.672][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.673][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.677][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.678][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.681][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.682][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.683][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.687][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.688][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.692][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.693][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:35.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.696][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.697][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.698][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.701][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.702][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.703][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.707][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.708][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.712][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.713][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.717][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.718][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.722][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.723][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:35.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.727][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:35.728][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:35.729][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.731][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.733][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.734][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.736][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.743][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.744][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.745][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.749][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.750][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.753][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.754][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.756][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.758][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.759][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.761][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.765][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.766][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.770][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.771][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.773][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.775][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.776][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.780][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.781][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.783][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.785][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:35.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:35.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:35.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.801][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.811][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:35.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:35.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:35.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.832][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.838][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.843][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:35.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:35.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.848][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:35.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:35.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:35.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:35.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:35.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.929][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.934][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.940][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:35.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.946][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.951][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.956][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:35.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:35.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.961][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.966][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.971][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:35.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:35.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:35.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:35.984][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:35.986][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:35.987][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:35.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:35.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:35.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:36.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:36.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:36.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:36.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:36.009][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:36.013][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:36.015][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2025-08-30 16:05:36.017][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:36.019][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2025-08-30 16:05:36.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:36.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:36.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:36.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:36.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:36.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:36.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:36.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:36.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:36.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:36.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:36.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:36.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:36.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:36.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:36.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:36.082][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:36.087][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:36.088][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2025-08-30 16:05:36.090][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:36.096][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2025-08-30 16:05:36.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:36.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:36.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:36.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:36.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:36.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:36.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:36.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:36.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:36.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:36.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:36.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:36.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:36.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:36.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:36.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:36.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:36.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:36.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:36.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:36.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:36.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:36.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:36.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:36.198][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:36.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:36.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:36.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:36.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:36.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:36.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:36.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:36.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.225][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.230][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.245][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.276][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.281][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.306][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.311][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.321][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.326][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.331][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.336][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.341][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.346][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:36.348][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:36.349][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:36.350][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:36.351][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:36.353][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.354][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.358][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.359][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.363][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.364][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.368][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.369][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.372][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.373][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.375][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.378][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.380][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.382][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.383][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.385][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.388][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.390][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.392][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.394][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.395][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.397][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.399][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.404][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.409][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.414][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.415][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.419][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.420][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.424][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.425][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.434][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.439][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.440][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.446][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.450][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.451][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.455][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.457][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.460][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.461][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.462][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.465][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.466][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.471][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.473][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.476][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.478][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.481][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.482][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.486][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:36.488][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:36.489][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.490][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.494][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.495][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.504][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.506][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.508][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.509][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.511][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.513][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.514][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.516][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.518][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.519][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.521][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.523][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.524][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.526][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.528][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.529][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.531][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.535][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.540][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.541][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.544][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.545][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.546][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.550][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:36.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.572][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.577][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.582][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.608][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.613][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.673][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.678][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.683][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.718][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.723][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.728][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.759][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.772][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:36.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:36.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:36.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:36.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:36.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:36.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:36.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:36.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.805][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.811][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.830][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.835][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.840][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.846][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.862][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.867][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.893][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.898][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.913][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.918][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.923][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.928][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:36.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.933][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:36.935][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:36.936][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:36.937][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:36.938][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:36.939][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:36.941][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:36.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.943][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.945][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:36.946][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:36.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:36.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.955][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:36.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:36.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:36.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:36.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.964][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.965][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.966][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:36.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.970][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.971][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:36.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.975][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.976][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:36.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.980][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.981][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:36.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.985][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.986][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:36.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.990][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:36.992][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:36.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:36.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:36.997][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:36.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:36.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.000][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.002][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.004][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.005][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.010][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.012][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.016][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.017][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.021][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.022][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.030][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.032][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.035][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.037][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.041][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.042][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.045][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.047][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.050][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.052][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.055][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.057][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.060][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.061][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.065][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.066][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.070][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.071][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.074][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:37.076][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:37.077][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.078][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.082][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.083][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.088][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.090][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.091][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.093][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.096][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.097][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.100][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.101][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.102][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.107][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.111][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.112][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.115][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.117][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.120][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.121][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.124][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.125][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.129][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.130][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.131][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.135][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:37.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.151][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.155][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.160][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.180][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.210][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.225][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.230][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.235][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.270][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.275][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.280][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.290][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.295][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.300][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.305][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.323][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:37.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:37.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:37.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:37.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:37.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:37.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:37.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:37.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.375][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.381][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.426][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.431][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.457][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.462][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.467][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.500][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.506][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.516][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:37.517][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:37.519][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:37.520][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:37.521][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:37.527][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.528][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.531][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.532][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.533][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.538][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.541][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.542][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.543][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.547][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.548][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.551][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.552][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.557][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.558][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.561][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.562][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.563][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.567][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.568][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.572][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.573][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.576][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.580][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.581][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.583][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.586][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.588][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.590][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.591][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.593][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.595][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.596][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.597][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.606][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.607][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.611][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.612][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.616][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.617][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.620][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.622][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:37.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.625][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.627][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.629][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.630][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.632][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.635][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.637][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.641][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.642][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.646][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.647][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.651][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.652][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:37.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.655][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.656][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:37.657][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:37.659][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.662][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.664][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.665][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.674][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.675][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.679][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.680][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.684][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.685][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.688][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.689][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.690][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.694][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.695][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.698][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.699][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.704][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.705][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.709][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.710][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.714][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:37.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:37.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:37.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.730][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.736][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.741][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:37.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:37.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:37.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.762][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.772][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:37.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:37.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.778][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:37.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:37.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.794][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:37.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:37.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.841][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.847][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.852][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:37.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:37.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:37.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.884][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:37.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:37.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.896][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:37.898][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:37.899][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:37.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:37.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:37.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:37.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:37.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:37.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:37.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:37.924][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:37.928][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:37.930][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2025-08-30 16:05:37.931][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:37.933][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2025-08-30 16:05:37.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:37.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:37.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:37.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:37.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:37.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:37.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:37.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:37.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:37.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:37.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:37.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:37.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:37.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:37.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:37.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:37.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:37.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:37.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:37.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:37.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:37.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.164][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:38.168][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:38.170][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2025-08-30 16:05:38.172][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:38.173][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2025-08-30 16:05:38.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:38.258][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:38.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.283][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.288][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.307][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.332][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.354][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.369][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.374][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.393][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.402][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.407][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:38.408][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:38.409][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:38.411][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:38.412][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:38.413][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.414][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.418][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.419][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.422][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.424][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.427][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.428][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.432][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.433][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.437][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.438][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.441][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.443][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.476][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.478][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.482][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.486][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.488][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.492][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.493][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.497][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.498][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.502][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.503][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.507][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.508][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.512][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.513][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.518][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.522][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.523][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.527][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.528][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.530][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.531][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.533][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.537][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.538][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.540][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.541][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.543][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.546][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.550][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.551][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.553][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.556][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.558][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.560][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.561][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.563][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.566][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.568][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.571][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:38.573][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:38.574][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.575][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.579][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.580][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.584][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.586][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.590][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.591][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.594][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.596][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.599][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.602][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.606][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.607][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.609][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.611][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.612][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.617][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.620][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.626][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.629][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.630][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.631][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.635][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.642][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.646][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:38.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.665][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.670][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.675][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.702][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.707][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.712][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.742][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.747][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.751][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.791][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.796][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.806][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.817][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.822][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.827][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.832][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.845][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2025-08-30 16:05:38.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:38.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:38.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:38.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:38.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:38.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:38.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:38.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.869][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.874][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:38.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:38.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:38.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:38.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:38.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:38.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.918][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.923][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:38.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:38.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:38.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.947][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.952][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:38.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.962][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:38.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:38.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.976][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.981][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:38.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.986][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:38.987][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:38.988][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:38.989][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:38.991][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:38.992][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:38.993][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:38.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:38.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:38.997][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:38.998][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:38.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.000][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.001][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.003][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.005][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.006][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.007][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.011][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.012][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.014][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.016][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.017][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.020][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.022][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.025][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.026][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.030][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.031][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.035][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.036][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.038][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.039][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.041][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.043][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.044][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.046][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.048][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.049][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.050][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.054][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.055][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.057][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.059][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.060][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.067][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.068][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.070][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.072][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.073][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.075][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.077][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.078][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.080][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.082][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.083][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.085][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.088][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.090][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.093][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.095][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.098][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.103][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.105][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.109][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.110][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.113][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.115][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.117][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.118][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:39.120][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:39.121][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.122][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.125][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.126][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.127][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.135][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.136][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.137][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.141][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.142][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.146][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.149][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.151][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.152][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.154][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.156][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.160][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.162][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.164][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.165][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.167][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.172][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.174][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.176][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:39.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.193][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.198][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.202][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.223][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.238][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.304][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.314][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.324][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.334][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.339][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.344][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.357][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2025-08-30 16:05:39.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:39.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:39.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:39.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:39.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:39.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:39.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:39.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.381][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.386][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.407][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.432][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.437][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.462][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.467][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.482][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.488][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.493][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.498][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.503][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:39.504][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:39.505][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:39.506][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:39.508][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:39.509][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.540][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.544][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.546][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.554][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.555][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.556][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.559][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.560][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.561][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.565][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.566][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.570][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.571][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.574][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.575][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.576][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.580][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.581][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.585][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.586][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.589][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.591][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.594][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.596][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.599][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.600][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.604][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.605][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.608][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.609][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.618][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.619][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.620][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.624][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.625][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.629][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.630][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.634][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.635][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:39.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.639][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.640][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.645][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.646][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.648][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.650][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.651][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.653][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.657][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.658][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.661][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.663][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.667][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.668][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:39.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.672][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:39.677][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:39.679][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.680][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.683][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.684][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.685][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.700][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.701][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.705][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.710][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.712][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.716][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.717][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.721][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.722][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.726][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.727][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.731][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.732][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.736][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.737][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.739][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.741][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:39.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:39.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:39.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.758][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.763][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.768][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:39.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:39.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:39.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.793][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.798][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:39.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:39.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:39.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:39.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.823][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:39.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:39.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.864][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.869][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:39.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:39.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:39.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.894][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.904][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:39.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:39.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.917][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:39.918][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:39.919][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:05:39.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:39.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:39.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:39.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:39.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:39.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:39.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:40.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:40.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:40.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:40.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:40.007][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:40.011][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:40.013][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:05:40.015][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:40.017][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:05:40.020][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:40.024][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:40.026][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:05:40.028][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:40.030][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:05:40.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:40.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:40.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:40.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:40.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:40.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:40.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:40.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:40.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:40.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:40.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:40.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:40.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:40.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:40.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:40.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:40.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:40.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:40.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:40.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:40.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:40.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:40.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:40.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:40.123][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:40.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:40.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:40.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:40.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:40.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:40.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:40.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:40.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.154][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.159][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.173][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.178][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.203][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.208][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.232][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.237][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.242][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.258][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.264][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:40.265][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:40.266][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:40.268][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:40.269][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:40.270][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.272][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.276][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.280][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.281][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.282][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.286][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.291][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.292][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.296][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.297][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.299][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.302][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.304][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.306][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.308][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.309][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.312][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.314][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.316][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.317][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.322][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.323][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.327][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.328][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.330][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.332][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.333][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.337][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.338][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.340][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.343][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.346][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.347][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.348][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.351][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.357][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.358][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.362][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.363][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.367][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.368][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.372][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.373][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.377][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.378][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.408][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.413][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.415][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.418][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:40.420][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:40.421][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.422][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.425][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.426][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.427][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.430][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.431][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.432][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.435][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.436][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.437][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.440][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.441][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.442][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.445][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.446][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.447][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.451][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.452][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.456][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.457][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.459][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.460][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.462][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.464][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.465][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.470][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.472][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.474][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.475][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.477][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.480][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:40.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.497][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.503][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.508][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.529][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.534][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.539][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.565][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.570][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.586][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.597][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.602][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.638][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.643][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.648][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.670][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.675][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.680][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.694][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:40.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:40.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:40.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:40.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:40.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:40.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:40.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:40.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.720][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.725][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.746][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.751][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.773][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.778][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.809][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.824][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.830][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.835][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:40.836][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:40.837][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:40.838][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:40.839][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:40.841][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.842][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.846][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.847][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.849][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.854][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.855][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.857][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.860][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.862][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.865][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.866][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.870][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.871][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.875][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.876][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.879][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.880][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.881][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.885][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.886][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.889][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.890][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.892][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.894][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.897][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.900][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.902][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.905][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.907][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.911][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.912][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.916][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.917][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.921][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.922][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.926][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.927][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.931][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.932][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.935][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.936][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.938][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:40.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.943][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:40.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.947][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.948][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:40.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.952][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:40.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:40.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.956][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.957][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:40.958][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:40.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.961][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.962][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:40.964][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:40.965][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:40.966][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:40.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.969][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.970][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:40.971][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:40.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.975][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:40.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.980][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:40.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:40.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.984][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.985][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:40.986][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:40.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.990][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.991][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:40.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:40.995][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.996][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:40.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:40.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.000][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.001][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.004][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.005][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.006][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.010][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.011][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.015][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.016][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.020][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.021][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.030][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:41.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.047][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.052][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.057][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.077][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.082][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.087][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.126][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.131][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.136][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.173][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.178][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.183][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.189][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.204][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.209][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.214][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.227][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2025-08-30 16:05:41.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:41.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:41.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:41.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:41.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:41.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:41.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:41.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.276][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.282][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.302][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.326][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.331][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.356][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.361][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.366][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.372][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.382][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.387][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:41.388][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:41.389][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:41.390][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:41.391][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:41.393][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.394][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.397][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.404][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.406][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.407][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.409][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.412][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.414][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.417][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.418][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.420][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.423][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.425][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.428][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.430][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.435][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.439][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.440][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.444][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.445][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.449][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.451][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.454][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.456][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.459][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.461][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.464][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.474][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.475][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.479][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.481][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.487][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.491][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.492][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.495][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.496][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.497][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.500][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.501][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.507][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.508][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.510][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.512][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.513][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.515][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.516][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.518][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.520][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.521][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.523][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.526][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:41.528][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:41.529][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.530][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.533][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.534][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.535][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.544][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.545][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.549][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.550][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.552][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.554][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.559][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.560][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.563][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.565][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.567][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.568][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.570][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.572][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.573][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.575][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.582][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.583][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:41.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.600][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.604][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.609][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.636][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.641][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.653][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.658][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.708][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.719][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:41.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:41.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:41.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.740][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.745][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:41.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:41.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.763][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:41.765][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:41.766][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:41.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:41.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:41.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:41.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:41.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:41.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:41.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:41.786][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:41.791][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:41.793][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:05:41.794][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:41.796][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:05:41.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:41.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:41.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:41.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:41.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:41.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:41.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:41.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:41.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:41.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:41.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:41.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:41.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:41.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:41.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:41.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:41.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:41.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:41.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:41.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:41.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:41.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:41.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:41.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:41.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:41.891][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:41.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:41.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:41.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:41.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:41.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:41.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:41.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:41.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:41.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:41.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.927][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:41.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:41.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:41.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.942][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.947][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:41.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:41.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:41.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:41.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:41.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.973][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.978][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:41.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:41.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:41.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.023][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.028][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.038][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.043][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.047][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.052][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:42.053][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:42.054][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:42.056][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:42.057][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:42.058][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.059][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.062][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.063][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.064][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.069][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.072][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.074][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.076][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.077][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.081][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.082][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.083][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.085][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.086][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.088][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.090][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.091][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.092][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.095][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.096][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.097][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.101][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.102][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.104][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.105][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.107][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.110][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.111][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.114][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.115][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.120][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.121][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.126][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.128][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.130][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.136][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.138][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.139][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.143][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.145][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.148][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.149][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.151][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.156][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.158][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.159][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.161][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.163][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.164][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.166][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.168][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.169][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.171][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.175][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:42.177][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:42.178][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.179][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.183][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.184][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.187][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.196][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.197][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.202][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.203][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.207][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.209][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.211][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.212][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.214][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.216][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.218][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.219][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.221][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.223][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.224][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.228][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.229][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.233][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.234][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.238][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.239][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.243][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:42.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.260][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.265][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.270][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.338][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.343][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.348][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.390][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.395][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.400][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.420][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.425][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.430][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.444][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:42.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:42.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:42.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:42.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:42.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:42.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:42.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:42.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.469][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.474][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.519][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.524][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.554][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.563][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.568][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.573][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.578][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:42.579][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:42.581][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:42.582][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:42.583][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:42.584][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.585][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.589][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.590][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.594][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.595][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.599][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.600][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.602][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.604][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.605][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.610][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.613][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.615][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.617][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.618][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.623][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.624][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.627][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.628][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.629][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.633][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.634][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.637][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.638][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.639][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.643][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.644][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.648][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.649][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.651][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.652][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.654][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.657][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.659][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.661][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.662][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.663][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.667][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.668][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.672][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.673][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:42.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.677][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.678][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.680][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.682][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.683][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.686][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.688][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.691][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.693][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.715][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.716][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.718][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.720][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:42.721][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:42.722][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.724][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.727][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.728][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.736][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.737][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.738][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.742][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.747][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.748][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.752][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.753][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.757][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.758][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.762][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.764][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.768][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.770][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.772][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.773][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.775][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.779][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:42.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.797][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.801][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.812][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.832][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.837][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.842][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:42.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:42.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:42.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:42.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.867][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:42.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:42.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:42.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.911][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.916][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.921][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:42.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:42.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:42.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.941][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:42.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:42.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.963][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:42.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:42.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:42.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:42.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:42.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:42.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:42.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:42.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:42.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:42.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.988][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.993][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:42.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:42.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:42.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:42.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:42.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.008][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.023][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.038][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.043][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.069][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.074][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.095][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.100][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:43.101][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:43.103][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:43.104][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:43.105][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:43.106][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.108][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.110][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.111][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.113][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.122][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.126][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.133][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.134][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.136][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.138][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.139][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.143][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.152][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.153][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.154][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.158][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.162][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.163][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.164][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.167][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.168][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.170][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.172][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.173][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.175][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.180][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.183][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.185][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.187][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.188][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.190][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.192][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.194][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.195][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.199][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.200][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.202][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.204][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.205][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.209][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.210][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.214][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.217][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.219][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.220][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.222][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.224][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.225][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.229][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:43.230][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:43.231][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.233][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.242][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.244][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.246][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.247][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.251][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.252][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.253][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.257][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.261][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.262][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.264][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.266][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.267][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.268][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.272][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.273][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.277][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.278][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.280][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.282][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.283][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.286][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.288][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.292][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:43.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.308][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.313][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.318][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.349][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.415][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.426][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.431][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.446][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.469][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.474][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.486][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:43.487][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:43.488][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:43.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:43.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:43.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:43.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:43.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:43.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:43.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:43.511][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:43.515][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:43.517][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:05:43.518][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:43.520][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:05:43.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:43.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:43.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:43.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:43.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:43.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:43.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:43.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:43.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:43.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:43.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:43.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:43.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:43.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:43.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:43.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:43.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:43.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:43.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:43.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:43.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:43.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:43.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:43.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:43.612][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:43.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:43.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:43.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:43.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:43.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:43.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:43.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:43.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.639][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.644][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.663][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.668][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.700][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.705][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.730][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.735][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.740][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.755][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.760][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:43.761][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:43.762][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:43.764][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:43.765][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:43.766][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.767][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.771][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.773][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.778][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.780][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.781][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.783][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.786][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.787][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.791][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.792][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.796][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.797][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.800][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.802][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.804][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.805][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.806][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.810][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.811][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.815][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.816][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.820][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.821][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.824][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.826][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.828][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.829][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.830][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.833][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.834][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.838][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.839][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.840][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.844][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.845][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.850][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.853][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.855][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.857][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.858][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.859][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.863][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.864][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.868][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.869][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.872][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.874][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.877][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.879][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.882][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:43.883][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:43.885][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.886][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.889][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.891][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.898][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.899][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.900][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.903][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.904][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:43.905][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:43.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.908][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.909][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.910][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:43.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.914][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.915][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:43.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.917][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.919][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.920][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:43.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.923][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.925][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:43.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.928][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.930][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:43.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.933][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:43.934][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:43.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.938][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:43.939][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:43.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.943][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:43.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:43.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:43.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.960][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.965][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.970][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:43.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:43.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:43.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.990][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:43.995][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:43.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:43.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:43.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.000][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.034][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.039][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.044][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.079][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.084][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.089][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.095][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.120][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.137][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2025-08-30 16:05:44.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:44.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:44.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:44.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:44.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:44.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:44.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:44.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.161][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.166][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.181][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.186][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.211][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.216][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.241][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.246][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.260][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.265][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.270][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:44.272][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:44.273][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:44.274][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:44.275][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:44.276][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.278][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.280][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.282][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.283][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.287][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.288][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.290][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.292][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.293][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.295][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.302][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.303][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.306][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.308][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.312][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.313][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.316][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.317][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.318][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.322][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.323][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.327][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.328][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.332][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.333][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.336][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.337][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.338][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.342][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.343][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.345][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.348][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.352][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.353][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.355][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.357][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.358][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.362][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.363][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.386][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.387][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.391][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.392][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.396][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.397][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.401][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.402][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.406][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.407][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.411][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.412][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.416][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:44.417][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:44.418][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.420][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.423][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.425][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.427][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.428][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.433][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.438][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.439][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.443][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.444][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.448][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.449][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.453][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.454][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.457][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.458][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.459][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.463][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.466][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.468][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.469][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.471][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.473][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:44.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.489][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.494][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.499][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.520][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.530][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.609][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.614][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.619][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.634][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.640][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.645][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.650][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.662][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2025-08-30 16:05:44.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:44.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:44.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:44.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:44.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:44.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:44.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:44.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.687][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.692][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.708][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.713][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.738][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.743][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.769][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.774][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.779][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.784][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.794][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.799][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:44.800][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:44.802][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:44.803][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:44.804][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:44.805][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.807][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.810][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.812][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.817][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.820][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.822][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.824][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.825][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.830][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.832][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.835][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.837][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.841][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.842][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.846][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.847][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.850][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.851][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.852][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.856][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.857][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.861][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.862][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.866][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.868][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.872][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.882][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.883][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.885][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.887][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.888][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.891][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.893][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.895][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.896][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.898][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:44.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.901][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.903][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.906][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.908][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.910][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.911][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.913][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.916][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.918][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.920][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.921][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.923][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.927][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:44.928][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:44.929][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.930][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.933][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.934][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:44.936][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:44.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.941][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:44.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.943][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.944][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:44.945][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:44.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.948][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.949][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:44.950][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:44.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.953][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.954][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.955][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:44.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.958][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.959][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.960][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:44.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:44.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.968][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.969][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.975][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:44.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.979][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:44.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:44.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.984][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:44.985][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:44.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.989][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:44.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:44.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:44.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:44.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:44.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.006][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.011][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.016][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.041][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.046][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.112][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.117][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.122][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.127][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.142][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.152][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.165][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:45.166][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:45.168][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:45.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:45.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:45.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:45.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:45.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:45.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:45.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:45.195][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:45.199][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:45.201][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-30 16:05:45.203][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:45.205][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-30 16:05:45.209][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:45.213][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:45.215][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-30 16:05:45.217][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:45.218][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-30 16:05:45.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:45.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:45.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:45.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:45.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:45.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:45.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:45.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:45.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:45.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:45.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:45.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:45.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:45.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:45.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:45.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:45.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:45.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:45.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:45.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:45.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:45.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:45.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:45.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:45.313][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:45.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:45.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:45.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:45.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:45.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:45.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:45.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:45.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.338][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.343][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.359][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.364][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.410][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.415][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.446][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.451][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.466][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.471][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.476][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:45.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:45.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.481][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:45.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:45.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.486][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:45.487][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:45.488][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:45.489][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:45.490][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:45.492][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.493][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.497][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.499][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.507][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.508][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.512][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.513][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.517][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.518][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.526][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.527][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.536][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.538][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.540][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.542][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.543][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.547][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.548][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.550][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.552][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.553][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.557][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.558][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.561][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.562][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:45.563][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:45.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.566][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.567][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.568][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.571][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.572][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.573][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.577][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.578][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.581][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.582][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.583][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.587][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.589][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.591][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.593][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.594][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.597][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.598][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.602][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.603][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.604][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.608][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.609][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.613][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.614][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.617][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.618][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.623][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.624][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.627][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.628][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:45.629][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:45.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.633][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:45.634][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:45.635][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.637][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.640][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.641][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.645][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.646][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.650][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.655][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.656][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.665][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.666][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.669][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.670][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.671][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.675][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.680][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.681][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.685][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.686][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.690][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.691][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.695][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:45.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.712][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.718][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.723][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.754][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.790][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.795][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.800][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.836][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.841][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.846][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:45.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.851][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:45.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:45.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.871][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:45.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:45.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.893][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:45.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:45.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:45.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:45.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:45.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:45.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:45.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:45.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:45.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:45.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.918][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.923][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:45.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:45.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:45.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:45.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:45.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.954][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:45.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:45.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:45.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.969][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.974][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:45.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:45.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:45.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:45.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:45.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.005][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.019][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.024][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.029][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.034][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.039][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:46.040][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:46.041][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:46.042][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:46.044][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:46.045][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.046][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.048][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.050][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.051][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.053][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.059][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.061][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.064][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.065][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.070][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.074][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.075][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.078][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.079][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.080][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.083][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.084][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.085][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.087][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.089][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.090][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.093][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.095][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.098][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.100][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.102][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.103][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.104][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.107][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.108][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.109][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.113][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.114][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.116][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.119][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.121][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.123][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.126][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.127][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.132][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.134][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.136][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.137][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.138][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.141][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.142][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.147][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.151][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.152][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.154][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.157][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.163][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.164][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.166][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.168][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.169][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.173][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:46.174][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:46.175][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.176][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.179][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.180][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.181][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.185][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.186][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.189][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.190][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.191][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.193][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.195][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.196][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.201][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.204][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.206][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.234][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.236][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.238][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.239][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.243][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.244][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.248][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.249][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.253][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.254][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.255][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.258][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.259][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:46.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.275][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.285][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.311][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.316][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.321][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.326][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.356][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.361][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.366][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.402][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.407][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.417][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.445][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.450][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.455][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.468][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2025-08-30 16:05:46.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:46.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:46.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:46.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:46.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:46.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:46.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:46.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.493][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.498][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.518][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.523][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.544][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.549][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.575][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.580][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.585][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.596][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.606][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.611][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.617][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:46.618][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:46.620][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:46.621][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:46.622][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:46.624][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.625][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.629][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.631][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.633][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.635][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.636][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.638][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.640][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.641][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.645][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.646][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.649][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.650][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.651][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.655][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.657][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.660][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.662][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.666][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.667][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.671][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.672][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.676][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.677][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.680][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.681][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.682][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.686][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.687][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.691][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.692][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.695][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.696][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.697][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.700][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.706][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.707][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.711][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.712][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.716][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.718][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.721][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.723][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:46.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.726][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.728][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.731][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.733][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.736][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.744][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.748][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.752][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.753][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.754][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.758][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.760][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:46.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.762][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.763][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:46.764][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:46.766][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.767][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.771][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.772][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.781][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.782][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.786][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.787][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.791][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.792][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.796][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.797][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.801][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.802][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.806][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.807][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.811][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.812][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.814][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.816][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.817][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.821][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:46.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:46.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:46.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.837][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.842][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.847][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:46.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:46.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:46.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.873][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.878][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:46.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:46.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:46.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:46.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:46.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:46.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:46.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.945][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.950][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.955][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:46.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.960][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.971][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:46.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:46.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.977][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:46.987][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:46.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:46.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:46.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.000][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:47.001][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:47.003][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:47.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:47.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:47.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:47.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:47.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:47.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:47.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:47.078][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:47.083][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:47.084][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2025-08-30 16:05:47.086][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:47.088][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2025-08-30 16:05:47.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:47.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:47.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:47.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:47.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:47.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:47.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:47.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:47.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:47.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:47.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:47.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:47.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:47.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:47.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:47.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:47.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:47.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:47.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:47.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:47.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:47.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:47.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:47.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:47.190][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:47.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:47.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:47.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:47.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:47.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:47.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:47.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:47.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.216][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.221][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.274][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.279][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.305][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.310][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.315][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.320][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.325][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.335][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.341][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.346][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:47.347][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:47.348][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:47.349][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:47.351][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:47.352][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.353][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.357][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.358][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.362][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.363][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.366][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.367][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.368][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.372][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.373][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.376][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.377][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.379][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.381][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.382][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.384][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.388][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.390][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.392][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.394][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.395][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.397][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.399][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.404][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.409][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.414][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.415][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.419][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.420][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.423][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.424][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.425][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.434][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.438][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.439][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.440][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.445][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.449][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.451][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.454][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.456][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.459][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.461][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.464][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.466][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.468][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.469][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.471][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.474][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.476][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.478][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.479][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.481][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.483][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.485][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:47.486][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:47.487][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.489][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.492][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.494][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.502][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.504][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.507][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.509][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.512][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.514][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.516][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.517][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.519][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.522][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.524][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.527][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.529][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.531][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.532][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.537][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.539][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.541][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.544][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.546][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.547][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:47.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.564][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.570][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.575][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.595][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.600][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.641][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.646][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.651][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.714][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.719][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.724][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.749][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.767][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:47.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:47.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:47.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:47.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:47.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:47.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:47.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:47.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.792][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.825][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.843][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.873][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.878][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:47.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:47.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.903][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.908][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:47.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:47.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:47.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.924][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.930][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:47.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:47.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.941][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:47.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.947][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:47.948][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:47.950][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:47.951][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:47.952][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:47.953][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:47.955][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:47.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.957][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.959][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:47.960][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:47.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.964][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.970][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:47.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.974][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:47.976][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:47.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.985][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:47.986][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:47.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.990][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.991][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:47.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:47.995][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:47.997][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.998][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:47.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.000][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.002][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.003][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.006][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.007][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.009][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.012][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.013][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.015][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.019][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.021][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.025][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.027][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.029][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.031][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.032][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.036][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.037][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.041][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.042][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.045][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.046][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.047][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.051][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.052][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.056][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.057][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.061][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.062][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.066][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.067][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.069][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.071][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.074][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.075][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.077][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.080][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.082][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.085][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.087][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.090][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.092][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.094][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.095][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.097][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.101][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:48.102][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:48.104][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.109][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.110][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.113][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.114][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.115][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.118][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.119][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.121][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.124][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.126][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.128][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.130][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.131][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.135][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.137][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.140][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.141][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.143][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.146][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.148][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.149][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.152][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.153][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.155][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.157][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.158][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.160][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.167][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.169][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:48.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.185][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.190][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.195][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.220][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.225][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.231][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.292][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.297][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.302][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.313][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.323][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.328][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.333][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.346][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:48.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:48.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:48.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:48.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:48.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:48.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:48.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:48.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.371][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.377][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.392][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.397][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.423][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.429][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.455][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.460][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.496][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.502][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.507][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.512][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.517][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.522][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:48.524][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:48.525][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:48.526][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:48.527][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:48.529][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.530][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.532][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.533][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.535][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.537][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.542][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.543][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.545][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.548][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.550][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.552][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.553][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.558][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.559][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.560][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.564][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.566][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.569][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.571][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.573][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.574][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.576][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.578][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.580][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.581][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.584][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.585][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.586][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.589][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.590][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.591][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.595][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.596][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.599][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.604][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.606][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.608][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.609][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.611][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.614][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.616][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.624][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.625][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.626][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.629][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.630][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.631][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:48.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.634][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.638][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.639][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.641][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.643][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.644][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.647][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.648][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.649][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.658][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.659][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.661][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.663][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.668][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.674][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:48.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.677][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.678][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:48.679][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:48.680][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.682][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.685][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.687][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.690][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.695][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.697][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.699][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.701][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.702][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.705][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.711][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.712][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.716][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.717][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.720][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.721][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.722][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.726][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.727][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.731][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.732][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.736][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:48.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:48.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:48.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.753][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.758][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.764][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:48.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:48.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:48.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.796][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:48.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:48.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.806][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:48.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:48.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:48.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:48.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.864][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.869][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:48.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.889][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:48.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:48.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.895][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.905][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:48.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:48.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.918][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2025-08-30 16:05:48.919][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:48.921][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2025-08-30 16:05:48.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:48.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:48.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:48.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:48.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:48.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:48.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-30 16:05:48.941][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-08-30 16:05:48.945][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-30 16:05:48.947][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2025-08-30 16:05:48.949][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-30 16:05:48.951][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2025-08-30 16:05:48.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:48.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:48.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:48.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:48.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:48.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:48.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:48.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:48.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:48.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:48.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:48.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:48.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:48.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:48.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:48.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:48.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:48.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:48.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:49.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:49.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:49.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:49.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:49.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:49.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:49.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:49.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-30 16:05:49.044][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-30 16:05:49.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:49.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:49.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:49.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:49.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:49.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:49.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:49.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.075][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.080][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.100][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.152][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.158][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.182][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.187][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.197][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.202][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.212][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.217][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.222][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:49.223][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:49.225][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:49.226][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:49.227][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:49.228][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.233][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.235][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.240][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.243][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.245][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.247][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.248][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.250][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.252][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.253][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.255][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.257][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.258][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.259][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.262][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.263][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.264][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.268][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.269][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.273][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.275][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.279][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.280][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.282][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.284][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.285][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.288][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.289][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.290][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.294][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.295][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.299][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.301][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.306][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.313][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.314][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.316][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.324][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.328][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.329][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.333][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.334][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.338][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.339][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.343][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.345][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.347][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.348][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.350][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.352][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.353][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.355][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.358][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.360][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.363][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.365][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.369][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:49.370][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:49.371][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.372][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.377][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.380][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.382][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.386][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.387][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.390][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.391][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.392][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.397][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.401][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.402][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.406][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.407][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.411][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.413][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.417][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.418][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.422][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.423][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.426][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.427][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.428][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.432][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:49.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.455][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.460][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.491][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.507][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.523][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.528][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.540][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.545][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.583][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.589][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.594][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.605][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.610][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.615][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.620][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.626][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.639][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2025-08-30 16:05:49.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:49.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:49.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:49.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:49.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:49.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:49.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:49.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.665][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.670][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.691][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.712][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.717][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.722][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.749][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.770][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.775][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.780][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.786][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.791][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:49.792][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:49.793][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:49.795][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:49.796][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:49.797][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.799][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.801][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.803][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.804][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.813][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.817][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.819][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.820][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.824][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.826][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.830][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.832][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.836][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.837][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.841][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.842][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.846][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.848][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.850][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.851][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.853][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.857][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.858][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.862][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.863][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.867][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.868][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.870][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.872][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.882][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.883][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.886][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.887][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.888][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.892][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.918][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.922][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.924][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:49.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.926][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.928][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.932][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.934][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.936][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:49.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.939][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.940][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.941][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:49.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.944][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.945][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:49.946][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:49.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.950][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:49.951][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:49.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.955][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.957][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:49.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.960][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.961][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:49.962][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:49.964][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:49.965][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:49.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.969][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:49.970][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:49.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:49.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.978][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.979][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:49.980][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:49.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.984][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:49.985][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:49.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.989][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.990][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:49.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:49.992][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:49.994][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:49.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.003][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.006][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.009][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.011][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.014][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.016][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.019][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.021][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.025][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:50.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.042][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.047][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.052][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.086][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.155][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.160][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.164][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.174][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.179][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.185][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.190][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.195][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.207][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2025-08-30 16:05:50.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-30 16:05:50.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:50.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:50.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:50.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:50.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:50.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-30 16:05:50.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.232][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.237][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.252][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.256][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.281][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:50.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:50.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.286][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:50.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:50.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.312][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.317][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.327][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.332][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.337][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.342][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:50.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:50.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.347][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:50.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:50.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.352][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:50.353][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-30 16:05:50.355][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-30 16:05:50.356][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-30 16:05:50.357][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2025-08-30 16:05:50.359][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.360][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.362][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.364][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.365][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.367][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.370][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.373][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.374][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.375][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.379][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.380][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.384][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.386][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.388][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.389][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:50.391][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:50.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.394][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.396][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.398][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.404][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.406][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.408][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.409][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.411][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.414][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.416][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.419][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:50.421][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:50.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.430][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.431][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.435][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.436][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.440][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.441][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.443][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.445][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.446][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.448][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.449][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.451][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.454][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.455][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.458][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.459][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:50.460][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-30 16:05:50.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.464][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.465][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.467][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.468][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.470][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.472][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.473][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.474][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.478][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.479][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.483][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.484][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.486][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.487][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2025-08-30 16:05:50.489][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2025-08-30 16:05:50.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.491][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.492][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:50.493][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2025-08-30 16:05:50.495][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.496][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.499][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.501][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.503][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.505][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.508][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.509][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.510][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.512][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.514][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.515][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.517][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.523][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.524][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.528][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.529][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.531][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.532][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.537][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.538][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.541][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.543][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.547][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2025-08-30 16:05:50.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-30 16:05:50.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-30 16:05:50.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.562][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.567][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.572][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-30 16:05:50.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-30 16:05:50.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-30 16:05:50.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.592][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.597][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.602][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-30 16:05:50.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-30 16:05:50.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-30 16:05:50.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-30 16:05:50.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-30 16:05:50.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-30 16:05:50.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-30 16:05:50.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.666][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.671][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.676][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-30 16:05:50.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-30 16:05:50.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-30 16:05:50.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.696][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.701][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.706][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-30 16:05:50.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-30 16:05:50.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.718][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2025-08-30 16:05:50.719][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-30 16:05:50.720][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-30 16:05:50.728][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:50.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:50.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.733][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:50.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:50.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-30 16:05:50.738][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:50.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-30 16:05:50.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-30 16:05:50.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-30 16:05:50.746][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-30 16:05:50.748][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-30 16:05:50.749][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-30 16:05:50.750][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-30 16:05:50.751][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-30 16:05:50.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-30 16:05:50.753][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-30 16:05:50.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-30 16:05:50.756][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-30 16:05:50.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 1398 ]
>
> proc.time()
user system elapsed
91.962 3.997 231.645
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.14.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.21-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.5.1 RC (2025-06-05 r88288)
* using platform: x86_64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.14.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
Running ‘testthat.R’
OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
* installing *source* package ‘biodbChebi’ ... ** this is package ‘biodbChebi’ version ‘1.14.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)